0s autopkgtest [23:24:18]: starting date and time: 2026-02-09 23:24:18+0000
  0s autopkgtest [23:24:18]: git checkout: 4b346b80 nova: make wait_reboot return success even when a no-op
  0s autopkgtest [23:24:18]: host juju-7f2275-prod-proposed-migration-environment-2; command line: /home/ubuntu/autopkgtest/runner/autopkgtest --output-dir /tmp/autopkgtest-work.71tlb_kc/out --timeout-copy=6000 --needs-internet=try -a i386 --setup-commands /home/ubuntu/autopkgtest-cloud/worker-config-production/setup-canonical.sh --apt-pocket=proposed=src:lattice --apt-upgrade r-cran-adegraphics --timeout-short=300 --timeout-copy=20000 --timeout-build=20000 --env=ADT_TEST_TRIGGERS=lattice/0.22-9-1 -- ssh -s /home/ubuntu/autopkgtest/ssh-setup/nova -- --flavor autopkgtest-cpu2-ram4-disk20-amd64 --security-groups autopkgtest-juju-7f2275-prod-proposed-migration-environment-2@sto01-15.secgroup --name adt-resolute-i386-r-cran-adegraphics-20260209-232418-juju-7f2275-prod-proposed-migration-environment-2-6cc24811-6e25-490a-9c52-67f74c3f6865 --image adt/ubuntu-resolute-amd64-server --keyname testbed-juju-7f2275-prod-proposed-migration-environment-2 --net-id=net_prod-autopkgtest-workers-amd64 -e TERM=linux --mirror=http://ftpmaster.internal/ubuntu/
  3s Creating nova instance adt-resolute-i386-r-cran-adegraphics-20260209-232418-juju-7f2275-prod-proposed-migration-environment-2-6cc24811-6e25-490a-9c52-67f74c3f6865 from image adt/ubuntu-resolute-amd64-server-20260204.img (UUID fedf54b4-458b-493e-8072-6425c19717b4)...
156s autopkgtest [23:26:54]: testbed dpkg architecture: amd64
157s autopkgtest [23:26:55]: testbed apt version: 3.1.14
157s autopkgtest [23:26:55]: @@@@@@@@@@@@@@@@@@@@ test bed setup
157s autopkgtest [23:26:55]: testbed release detected to be: None
158s autopkgtest [23:26:56]: updating testbed package index (apt update)
159s Get:1 http://ftpmaster.internal/ubuntu resolute-proposed InRelease [124 kB]
159s Hit:2 http://ftpmaster.internal/ubuntu resolute InRelease
159s Hit:3 http://ftpmaster.internal/ubuntu resolute-updates InRelease
159s Hit:4 http://ftpmaster.internal/ubuntu resolute-security InRelease
159s Get:5 http://ftpmaster.internal/ubuntu resolute-proposed/universe Sources [1645 kB]
163s Get:6 http://ftpmaster.internal/ubuntu resolute-proposed/multiverse Sources [29.4 kB]
163s Get:7 http://ftpmaster.internal/ubuntu resolute-proposed/main Sources [176 kB]
163s Get:8 http://ftpmaster.internal/ubuntu resolute-proposed/main i386 Packages [210 kB]
163s Get:9 http://ftpmaster.internal/ubuntu resolute-proposed/main amd64 Packages [249 kB]
163s Get:10 http://ftpmaster.internal/ubuntu resolute-proposed/main amd64 c-n-f Metadata [5980 B]
163s Get:11 http://ftpmaster.internal/ubuntu resolute-proposed/restricted amd64 c-n-f Metadata [316 B]
163s Get:12 http://ftpmaster.internal/ubuntu resolute-proposed/universe i386 Packages [657 kB]
165s Get:13 http://ftpmaster.internal/ubuntu resolute-proposed/universe amd64 Packages [1592 kB]
168s Get:14 http://ftpmaster.internal/ubuntu resolute-proposed/universe amd64 c-n-f Metadata [33.1 kB]
168s Get:15 http://ftpmaster.internal/ubuntu resolute-proposed/multiverse amd64 Packages [25.2 kB]
168s Get:16 http://ftpmaster.internal/ubuntu resolute-proposed/multiverse i386 Packages [4320 B]
168s Get:17 http://ftpmaster.internal/ubuntu resolute-proposed/multiverse amd64 c-n-f Metadata [996 B]
169s Fetched 4752 kB in 10s (481 kB/s)
169s Reading package lists...
170s Hit:1 http://ftpmaster.internal/ubuntu resolute-proposed InRelease
170s Hit:2 http://ftpmaster.internal/ubuntu resolute InRelease
170s Hit:3 http://ftpmaster.internal/ubuntu resolute-updates InRelease
170s Hit:4 http://ftpmaster.internal/ubuntu resolute-security InRelease
170s Reading package lists...
170s Reading package lists...
170s Building dependency tree...
170s Reading state information...
171s Calculating upgrade...
171s The following package was automatically installed and is no longer required:
171s   libpython3.13
171s Use 'sudo apt autoremove' to remove it.
171s The following NEW packages will be installed:
171s   libpython3.14 libpython3.14-minimal libpython3.14-stdlib
171s   linux-headers-6.19.0-3 linux-headers-6.19.0-3-generic
171s   linux-image-6.19.0-3-generic linux-modules-6.19.0-3-generic
171s   linux-tools-6.19.0-3 linux-tools-6.19.0-3-generic
171s The following packages will be upgraded:
171s   3cpio amd64-microcode apt bpftool busybox-initramfs busybox-static
171s   cryptsetup-bin dash dbus dbus-bin dbus-daemon dbus-session-bus-common
171s   dbus-system-bus-common dbus-user-session debianutils dmsetup dracut-install
171s   ethtool findutils gir1.2-girepository-3.0 gir1.2-glib-2.0 hwdata iproute2
171s   iptables less libapt-pkg7.0 libattr1 libbpf1 libbsd0 libcryptsetup12
171s   libdbus-1-3 libdevmapper1.02.1 libdrm-amdgpu1 libdrm-common libdrm2
171s   libevent-core-2.1-7t64 libgdbm-compat4t64 libgdbm6t64 libgirepository-2.0-0
171s   libglib2.0-0t64 libglib2.0-data libgpm2 libgudev-1.0-0 libidn2-0 libip4tc2
171s   libip6tc2 libjansson4 libkeyutils1 liblsof0 libmaxminddb0
171s   libnetfilter-conntrack3 libnpth0t64 libonig5 libpcap0.8t64 libpci3
171s   libsensors-config libsensors5 libusb-1.0-0 libwrap0 libxau6 libxkbcommon0
171s   libxtables12 linux-generic linux-headers-generic linux-headers-virtual
171s   linux-image-generic linux-image-virtual linux-perf linux-tools-common
171s   linux-virtual lsof man-db mawk patch pciutils pnp.ids pollinate
171s   python3-linkify-it python3-markdown-it python3-referencing sed
171s   shared-mime-info tar tcpdump ubuntu-kernel-accessories ubuntu-standard wget
171s 87 upgraded, 9 newly installed, 0 to remove and 0 not upgraded.
171s Need to get 236 MB of archives.
171s After this operation, 339 MB of additional disk space will be used.
171s Get:1 http://ftpmaster.internal/ubuntu resolute/main amd64 debianutils amd64 5.23.2build1 [93.3 kB]
171s Get:2 http://ftpmaster.internal/ubuntu resolute/main amd64 dash amd64 0.5.12-12ubuntu3 [96.0 kB]
171s Get:3 http://ftpmaster.internal/ubuntu resolute/main amd64 findutils amd64 4.10.0-3build2 [307 kB]
171s Get:4 http://ftpmaster.internal/ubuntu resolute/main amd64 sed amd64 4.9-2build3 [195 kB]
171s Get:5 http://ftpmaster.internal/ubuntu resolute/main amd64 tar amd64 1.35+dfsg-3.1build2 [257 kB]
171s Get:6 http://ftpmaster.internal/ubuntu resolute/main amd64 libattr1 amd64 1:2.5.2-3build2 [11.4 kB]
171s Get:7 http://ftpmaster.internal/ubuntu resolute/main amd64 libbsd0 amd64 0.12.2-2build2 [42.3 kB]
171s Get:8 http://ftpmaster.internal/ubuntu resolute/main amd64 mawk amd64 1.3.4.20260129-1 [133 kB]
171s Get:9 http://ftpmaster.internal/ubuntu resolute/main amd64 libapt-pkg7.0 amd64 3.1.15 [1151 kB]
173s Get:10 http://ftpmaster.internal/ubuntu resolute/main amd64 apt amd64 3.1.15 [1479 kB]
176s Get:11 http://ftpmaster.internal/ubuntu resolute/main amd64 dbus-system-bus-common all 1.16.2-2ubuntu3 [55.8 kB]
176s Get:12 http://ftpmaster.internal/ubuntu resolute/main amd64 dbus-session-bus-common all 1.16.2-2ubuntu3 [54.4 kB]
176s Get:13 http://ftpmaster.internal/ubuntu resolute/main amd64 dbus-user-session amd64 1.16.2-2ubuntu3 [9696 B]
176s Get:14 http://ftpmaster.internal/ubuntu resolute/main amd64 dbus-daemon amd64 1.16.2-2ubuntu3 [119 kB]
176s Get:15 http://ftpmaster.internal/ubuntu resolute/main amd64 dbus-bin amd64 1.16.2-2ubuntu3 [40.1 kB]
176s Get:16 http://ftpmaster.internal/ubuntu resolute/main amd64 dbus amd64 1.16.2-2ubuntu3 [24.2 kB]
176s Get:17 http://ftpmaster.internal/ubuntu resolute/main amd64 libdbus-1-3 amd64 1.16.2-2ubuntu3 [185 kB]
176s Get:18 http://ftpmaster.internal/ubuntu resolute/main amd64 libdevmapper1.02.1 amd64 2:1.02.205-2ubuntu3 [142 kB]
176s Get:19 http://ftpmaster.internal/ubuntu resolute/main amd64 dmsetup amd64 2:1.02.205-2ubuntu3 [79.4 kB]
176s Get:20 http://ftpmaster.internal/ubuntu resolute/main amd64 ethtool amd64 1:6.15-3build1 [318 kB]
176s Get:21 http://ftpmaster.internal/ubuntu resolute/main amd64 gir1.2-girepository-3.0 amd64 2.87.2-2 [25.2 kB]
176s Get:22 http://ftpmaster.internal/ubuntu resolute/main amd64 libgirepository-2.0-0 amd64 2.87.2-2 [76.1 kB]
176s Get:23 http://ftpmaster.internal/ubuntu resolute/main amd64 gir1.2-glib-2.0 amd64 2.87.2-2 [182 kB]
176s Get:24 http://ftpmaster.internal/ubuntu resolute/main amd64 libglib2.0-0t64 amd64 2.87.2-2 [1613 kB]
179s Get:25 http://ftpmaster.internal/ubuntu resolute/main amd64 libbpf1 amd64 1:1.6.2-1build1 [184 kB]
179s Get:26 http://ftpmaster.internal/ubuntu resolute/main amd64 iptables amd64 1.8.11-2ubuntu3 [381 kB]
179s Get:27 http://ftpmaster.internal/ubuntu resolute/main amd64 libip4tc2 amd64 1.8.11-2ubuntu3 [24.2 kB]
179s Get:28 http://ftpmaster.internal/ubuntu resolute/main amd64 libip6tc2 amd64 1.8.11-2ubuntu3 [24.4 kB]
179s Get:29 http://ftpmaster.internal/ubuntu resolute/main amd64 libnetfilter-conntrack3 amd64 1.1.1-1 [47.5 kB]
179s Get:30 http://ftpmaster.internal/ubuntu resolute/main amd64 libxtables12 amd64 1.8.11-2ubuntu3 [36.6 kB]
179s Get:31 http://ftpmaster.internal/ubuntu resolute/main amd64 iproute2 amd64 6.18.0-1ubuntu1 [1178 kB]
181s Get:32 http://ftpmaster.internal/ubuntu resolute/main amd64 less amd64 668-1build1 [172 kB]
181s Get:33 http://ftpmaster.internal/ubuntu resolute/main amd64 libcryptsetup12 amd64 2:2.8.0-1ubuntu3 [283 kB]
181s Get:34 http://ftpmaster.internal/ubuntu resolute/main amd64 libglib2.0-data all 2.87.2-2 [58.2 kB]
181s Get:35 http://ftpmaster.internal/ubuntu resolute/main amd64 libidn2-0 amd64 2.3.8-4build1 [67.6 kB]
181s Get:36 http://ftpmaster.internal/ubuntu resolute/main amd64 libkeyutils1 amd64 1.6.3-6ubuntu3 [10.6 kB]
181s Get:37 http://ftpmaster.internal/ubuntu resolute/main amd64 python3-linkify-it all 2.0.3-1ubuntu3 [19.4 kB]
181s Get:38 http://ftpmaster.internal/ubuntu resolute/main amd64 python3-markdown-it all 3.0.0-3build1 [54.4 kB]
181s Get:39 http://ftpmaster.internal/ubuntu resolute/main amd64 shared-mime-info amd64 2.4-5build3 [476 kB]
181s Get:40 http://ftpmaster.internal/ubuntu resolute/main amd64 busybox-static amd64 1:1.37.0-7ubuntu1 [1034 kB]
182s Get:41 http://ftpmaster.internal/ubuntu resolute/main amd64 libdrm-common all 2.4.131-1 [9774 B]
182s Get:42 http://ftpmaster.internal/ubuntu resolute/main amd64 libdrm2 amd64 2.4.131-1 [42.3 kB]
182s Get:43 http://ftpmaster.internal/ubuntu resolute/main amd64 libgdbm6t64 amd64 1.26-1build1 [36.5 kB]
182s Get:44 http://ftpmaster.internal/ubuntu resolute/main amd64 libgpm2 amd64 1.20.7-12build1 [14.4 kB]
182s Get:45 http://ftpmaster.internal/ubuntu resolute/main amd64 libjansson4 amd64 2.14-2build4 [33.2 kB]
182s Get:46 http://ftpmaster.internal/ubuntu resolute/main amd64 lsof amd64 4.99.4+dfsg-2build2 [239 kB]
182s Get:47 http://ftpmaster.internal/ubuntu resolute/main amd64 liblsof0 amd64 4.99.4+dfsg-2build2 [56.5 kB]
182s Get:48 http://ftpmaster.internal/ubuntu resolute/main amd64 libmaxminddb0 amd64 1.12.2-1build2 [18.9 kB]
182s Get:49 http://ftpmaster.internal/ubuntu resolute/main amd64 libpcap0.8t64 amd64 1.10.5-2ubuntu3 [154 kB]
182s Get:50 http://ftpmaster.internal/ubuntu resolute/main amd64 pciutils amd64 1:3.14.0-1build2 [95.5 kB]
182s Get:51 http://ftpmaster.internal/ubuntu resolute/main amd64 libpci3 amd64 1:3.14.0-1build2 [38.1 kB]
182s Get:52 http://ftpmaster.internal/ubuntu resolute/main amd64 libsensors-config all 1:3.6.2-2build1 [6862 B]
182s Get:53 http://ftpmaster.internal/ubuntu resolute/main amd64 libsensors5 amd64 1:3.6.2-2build1 [28.9 kB]
182s Get:54 http://ftpmaster.internal/ubuntu resolute/main amd64 libusb-1.0-0 amd64 2:1.0.29-2build1 [56.9 kB]
182s Get:55 http://ftpmaster.internal/ubuntu resolute/main amd64 libxau6 amd64 1:1.0.11-1build2 [7502 B]
182s Get:56 http://ftpmaster.internal/ubuntu resolute/main amd64 libxkbcommon0 amd64 1.13.1-1 [159 kB]
182s Get:57 http://ftpmaster.internal/ubuntu resolute/main amd64 man-db amd64 2.13.1-1build1 [1392 kB]
184s Get:58 http://ftpmaster.internal/ubuntu resolute/main amd64 tcpdump amd64 4.99.5-2ubuntu3 [477 kB]
184s Get:59 http://ftpmaster.internal/ubuntu resolute/main amd64 wget amd64 1.25.0-2ubuntu4 [353 kB]
184s Get:60 http://ftpmaster.internal/ubuntu resolute/main amd64 ubuntu-standard amd64 1.564 [13.3 kB]
184s Get:61 http://ftpmaster.internal/ubuntu resolute/main amd64 3cpio amd64 0.14.0-1ubuntu1 [285 kB]
184s Get:62 http://ftpmaster.internal/ubuntu resolute/main amd64 bpftool amd64 7.7.0+6.19.0-3.3 [1229 kB]
187s Get:63 http://ftpmaster.internal/ubuntu resolute/main amd64 busybox-initramfs amd64 1:1.37.0-7ubuntu1 [191 kB]
187s Get:64 http://ftpmaster.internal/ubuntu resolute/main amd64 cryptsetup-bin amd64 2:2.8.0-1ubuntu3 [228 kB]
187s Get:65 http://ftpmaster.internal/ubuntu resolute/main amd64 dracut-install amd64 109-11ubuntu1 [45.8 kB]
187s Get:66 http://ftpmaster.internal/ubuntu resolute/main amd64 hwdata all 0.394-1build1 [1566 B]
187s Get:67 http://ftpmaster.internal/ubuntu resolute/main amd64 pnp.ids all 0.394-1build1 [29.6 kB]
187s Get:68 http://ftpmaster.internal/ubuntu resolute/main amd64 libdrm-amdgpu1 amd64 2.4.131-1 [23.2 kB]
187s Get:69 http://ftpmaster.internal/ubuntu resolute/main amd64 libevent-core-2.1-7t64 amd64 2.1.12-stable-10build2 [93.1 kB]
187s Get:70 http://ftpmaster.internal/ubuntu resolute/main amd64 libgdbm-compat4t64 amd64 1.26-1build1 [6796 B]
187s Get:71 http://ftpmaster.internal/ubuntu resolute/main amd64 libgudev-1.0-0 amd64 1:238-7build1 [15.9 kB]
187s Get:72 http://ftpmaster.internal/ubuntu resolute/main amd64 libnpth0t64 amd64 1.8-3build1 [9302 B]
187s Get:73 http://ftpmaster.internal/ubuntu resolute/main amd64 libonig5 amd64 6.9.10-1build1 [174 kB]
187s Get:74 http://ftpmaster.internal/ubuntu resolute/main amd64 libpython3.14-minimal amd64 3.14.2-1 [920 kB]
188s Get:75 http://ftpmaster.internal/ubuntu resolute/main amd64 libpython3.14-stdlib amd64 3.14.2-1 [2398 kB]
192s Get:76 http://ftpmaster.internal/ubuntu resolute/main amd64 libpython3.14 amd64 3.14.2-1 [2568 kB]
196s Get:77 http://ftpmaster.internal/ubuntu resolute/main amd64 libwrap0 amd64 7.6.q-36build2 [48.5 kB]
196s Get:78 http://ftpmaster.internal/ubuntu resolute/main amd64 linux-modules-6.19.0-3-generic amd64 6.19.0-3.3 [171 MB]
538s Get:79 http://ftpmaster.internal/ubuntu resolute/main amd64 linux-image-6.19.0-3-generic amd64 6.19.0-3.3+1 [16.8 MB]
569s Get:80 http://ftpmaster.internal/ubuntu resolute/main amd64 amd64-microcode amd64 3.20251202.1ubuntu1 [459 kB]
569s Get:81 http://ftpmaster.internal/ubuntu resolute/main amd64 linux-generic amd64 6.19.0-3.3 [1698 B]
569s Get:82 http://ftpmaster.internal/ubuntu resolute/main amd64 linux-image-generic amd64 6.19.0-3.3 [12.2 kB]
569s Get:83 http://ftpmaster.internal/ubuntu resolute/main amd64 linux-virtual amd64 6.19.0-3.3 [1700 B]
569s Get:84 http://ftpmaster.internal/ubuntu resolute/main amd64 linux-image-virtual amd64 6.19.0-3.3 [12.1 kB]
569s Get:85 http://ftpmaster.internal/ubuntu resolute/main amd64 linux-headers-virtual amd64 6.19.0-3.3 [1646 B]
569s Get:86 http://ftpmaster.internal/ubuntu resolute/main amd64 linux-headers-6.19.0-3 all 6.19.0-3.3 [14.9 MB]
599s Get:87 http://ftpmaster.internal/ubuntu resolute/main amd64 linux-headers-6.19.0-3-generic amd64 6.19.0-3.3 [4330 kB]
607s Get:88 http://ftpmaster.internal/ubuntu resolute/main amd64 linux-headers-generic amd64 6.19.0-3.3 [12.0 kB]
607s Get:89 http://ftpmaster.internal/ubuntu resolute/main amd64 linux-perf amd64 6.19.0-3.3 [4480 kB]
615s Get:90 http://ftpmaster.internal/ubuntu resolute/main amd64 linux-tools-common all 6.19.0-3.3 [345 kB]
615s Get:91 http://ftpmaster.internal/ubuntu resolute/main amd64 linux-tools-6.19.0-3 amd64 6.19.0-3.3 [1455 kB]
618s Get:92 http://ftpmaster.internal/ubuntu resolute/main amd64 linux-tools-6.19.0-3-generic amd64 6.19.0-3.3 [1612 B]
618s Get:93 http://ftpmaster.internal/ubuntu resolute/main amd64 patch amd64 2.8-2build1 [95.7 kB]
618s Get:94 http://ftpmaster.internal/ubuntu resolute/main amd64 pollinate all 4.33-4ubuntu5 [14.0 kB]
618s Get:95 http://ftpmaster.internal/ubuntu resolute/main amd64 python3-referencing all 0.36.2-1ubuntu2 [22.2 kB]
618s Get:96 http://ftpmaster.internal/ubuntu resolute/main amd64 ubuntu-kernel-accessories amd64 1.564 [13.1 kB]
619s dpkg-preconfigure: unable to re-open stdin: No such file or directory
619s Fetched 236 MB in 7min 27s (527 kB/s)
619s (Reading database ... 
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(Reading database ... 83957 files and directories currently installed.)
619s Preparing to unpack .../debianutils_5.23.2build1_amd64.deb ...
619s Unpacking debianutils (5.23.2build1) over (5.23.2) ...
619s Setting up debianutils (5.23.2build1) ...
619s (Reading database ... 
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(Reading database ... 83957 files and directories currently installed.)
619s Preparing to unpack .../dash_0.5.12-12ubuntu3_amd64.deb ...
619s Unpacking dash (0.5.12-12ubuntu3) over (0.5.12-12ubuntu2) ...
619s Setting up dash (0.5.12-12ubuntu3) ...
620s (Reading database ... 
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(Reading database ... 83957 files and directories currently installed.)
620s Preparing to unpack .../findutils_4.10.0-3build2_amd64.deb ...
620s Unpacking findutils (4.10.0-3build2) over (4.10.0-3build1) ...
620s Setting up findutils (4.10.0-3build2) ...
620s (Reading database ... 
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(Reading database ... 83957 files and directories currently installed.)
620s Preparing to unpack .../sed_4.9-2build3_amd64.deb ...
620s Unpacking sed (4.9-2build3) over (4.9-2build2) ...
620s Setting up sed (4.9-2build3) ...
620s (Reading database ... 
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(Reading database ... 83957 files and directories currently installed.)
620s Preparing to unpack .../tar_1.35+dfsg-3.1build2_amd64.deb ...
620s Unpacking tar (1.35+dfsg-3.1build2) over (1.35+dfsg-3.1build1) ...
620s Setting up tar (1.35+dfsg-3.1build2) ...
620s (Reading database ... 
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(Reading database ... 83957 files and directories currently installed.)
620s Preparing to unpack .../libattr1_1%3a2.5.2-3build2_amd64.deb ...
620s Unpacking libattr1:amd64 (1:2.5.2-3build2) over (1:2.5.2-3build1) ...
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627s Preparing to unpack .../53-ubuntu-standard_1.564_amd64.deb ...
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627s Preparing to unpack .../54-3cpio_0.14.0-1ubuntu1_amd64.deb ...
627s Unpacking 3cpio (0.14.0-1ubuntu1) over (0.13.1-1ubuntu1) ...
627s Preparing to unpack .../55-bpftool_7.7.0+6.19.0-3.3_amd64.deb ...
627s Unpacking bpftool (7.7.0+6.19.0-3.3) over (7.7.0+6.18.0-9.9) ...
627s Preparing to unpack .../56-busybox-initramfs_1%3a1.37.0-7ubuntu1_amd64.deb ...
627s Unpacking busybox-initramfs (1:1.37.0-7ubuntu1) over (1:1.37.0-4ubuntu1) ...
627s Preparing to unpack .../57-cryptsetup-bin_2%3a2.8.0-1ubuntu3_amd64.deb ...
627s Unpacking cryptsetup-bin (2:2.8.0-1ubuntu3) over (2:2.8.0-1ubuntu2) ...
627s Preparing to unpack .../58-dracut-install_109-11ubuntu1_amd64.deb ...
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627s Preparing to unpack .../59-hwdata_0.394-1build1_all.deb ...
627s Unpacking hwdata (0.394-1build1) over (0.394-1) ...
627s Preparing to unpack .../60-pnp.ids_0.394-1build1_all.deb ...
627s Unpacking pnp.ids (0.394-1build1) over (0.394-1) ...
627s Preparing to unpack .../61-libdrm-amdgpu1_2.4.131-1_amd64.deb ...
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627s Preparing to unpack .../62-libevent-core-2.1-7t64_2.1.12-stable-10build2_amd64.deb ...
627s Unpacking libevent-core-2.1-7t64:amd64 (2.1.12-stable-10build2) over (2.1.12-stable-10build1) ...
627s Preparing to unpack .../63-libgdbm-compat4t64_1.26-1build1_amd64.deb ...
627s Unpacking libgdbm-compat4t64:amd64 (1.26-1build1) over (1.26-1) ...
627s Preparing to unpack .../64-libgudev-1.0-0_1%3a238-7build1_amd64.deb ...
627s Unpacking libgudev-1.0-0:amd64 (1:238-7build1) over (1:238-7) ...
627s Preparing to unpack .../65-libnpth0t64_1.8-3build1_amd64.deb ...
627s Unpacking libnpth0t64:amd64 (1.8-3build1) over (1.8-3) ...
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627s Selecting previously unselected package libpython3.14-minimal:amd64.
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627s Unpacking libpython3.14-minimal:amd64 (3.14.2-1) ...
628s Selecting previously unselected package libpython3.14-stdlib:amd64.
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628s Unpacking libpython3.14:amd64 (3.14.2-1) ...
628s Preparing to unpack .../70-libwrap0_7.6.q-36build2_amd64.deb ...
628s Unpacking libwrap0:amd64 (7.6.q-36build2) over (7.6.q-36build1) ...
628s Selecting previously unselected package linux-modules-6.19.0-3-generic.
628s Preparing to unpack .../71-linux-modules-6.19.0-3-generic_6.19.0-3.3_amd64.deb ...
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630s Preparing to unpack .../73-amd64-microcode_3.20251202.1ubuntu1_amd64.deb ...
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630s Preparing to unpack .../74-linux-generic_6.19.0-3.3_amd64.deb ...
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630s Preparing to unpack .../75-linux-image-generic_6.19.0-3.3_amd64.deb ...
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631s Preparing to unpack .../78-linux-headers-virtual_6.19.0-3.3_amd64.deb ...
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636s Setting up libip4tc2:amd64 (1.8.11-2ubuntu3) ...
636s Setting up 3cpio (0.14.0-1ubuntu1) ...
636s Setting up libxau6:amd64 (1:1.0.11-1build2) ...
636s Setting up libnpth0t64:amd64 (1.8-3build1) ...
636s Setting up libkeyutils1:amd64 (1.6.3-6ubuntu3) ...
636s Setting up ubuntu-kernel-accessories (1.564) ...
636s Setting up libgpm2:amd64 (1.20.7-12build1) ...
636s Setting up libgdbm6t64:amd64 (1.26-1build1) ...
636s Setting up linux-modules-6.19.0-3-generic (6.19.0-3.3) ...
638s Setting up libgdbm-compat4t64:amd64 (1.26-1build1) ...
638s Setting up bpftool (7.7.0+6.19.0-3.3) ...
638s Setting up libip6tc2:amd64 (1.8.11-2ubuntu3) ...
638s Setting up liblsof0 (4.99.4+dfsg-2build2) ...
638s Setting up libmaxminddb0:amd64 (1.12.2-1build2) ...
638s Setting up libpython3.14-minimal:amd64 (3.14.2-1) ...
638s Setting up libsensors-config (1:3.6.2-2build1) ...
638s Setting up less (668-1build1) ...
638s Setting up linux-headers-6.19.0-3 (6.19.0-3.3) ...
638s Setting up libidn2-0:amd64 (2.3.8-4build1) ...
638s Setting up amd64-microcode (3.20251202.1ubuntu1) ...
638s amd64-microcode: microcode will be updated at next boot
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638s Updating database of manual pages ...
641s man-db.service is a disabled or a static unit not running, not starting it.
641s Setting up libjansson4:amd64 (2.14-2build4) ...
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641s No schema files found: doing nothing.
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641s Setting up pollinate (4.33-4ubuntu5) ...
652s Setting up busybox-static (1:1.37.0-7ubuntu1) ...
652s Setting up libwrap0:amd64 (7.6.q-36build2) ...
652s Setting up linux-image-6.19.0-3-generic (6.19.0-3.3+1) ...
654s I: /boot/vmlinuz is now a symlink to vmlinuz-6.19.0-3-generic
654s I: /boot/initrd.img is now a symlink to initrd.img-6.19.0-3-generic
654s Setting up libdbus-1-3:amd64 (1.16.2-2ubuntu3) ...
654s Setting up shared-mime-info (2.4-5build3) ...
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657s Setting up gir1.2-glib-2.0:amd64 (2.87.2-2) ...
657s Setting up libsensors5:amd64 (1:3.6.2-2build1) ...
657s Setting up busybox-initramfs (1:1.37.0-7ubuntu1) ...
657s Setting up libxtables12:amd64 (1.8.11-2ubuntu3) ...
657s Setting up lsof (4.99.4+dfsg-2build2) ...
657s Setting up libpci3:amd64 (1:3.14.0-1build2) ...
657s Setting up libdevmapper1.02.1:amd64 (2:1.02.205-2ubuntu3) ...
657s Setting up dracut-install (109-11ubuntu1) ...
657s Setting up dmsetup (2:1.02.205-2ubuntu3) ...
657s Setting up libnetfilter-conntrack3:amd64 (1.1.1-1) ...
657s Setting up pnp.ids (0.394-1build1) ...
657s Setting up dbus-session-bus-common (1.16.2-2ubuntu3) ...
657s Setting up python3-linkify-it (2.0.3-1ubuntu3) ...
657s Setting up libpcap0.8t64:amd64 (1.10.5-2ubuntu3) ...
657s Setting up libcryptsetup12:amd64 (2:2.8.0-1ubuntu3) ...
657s Setting up mawk (1.3.4.20260129-1) ...
657s Setting up libevent-core-2.1-7t64:amd64 (2.1.12-stable-10build2) ...
657s Setting up libusb-1.0-0:amd64 (2:1.0.29-2build1) ...
657s Setting up libapt-pkg7.0:amd64 (3.1.15) ...
657s Setting up linux-image-virtual (6.19.0-3.3) ...
657s Setting up dbus-system-bus-common (1.16.2-2ubuntu3) ...
657s Setting up libbsd0:amd64 (0.12.2-2build2) ...
657s Setting up libdrm-common (2.4.131-1) ...
657s Setting up dbus-bin (1.16.2-2ubuntu3) ...
657s Setting up libonig5:amd64 (6.9.10-1build1) ...
657s Setting up libgudev-1.0-0:amd64 (1:238-7build1) ...
657s Setting up libbpf1:amd64 (1:1.6.2-1build1) ...
657s Setting up ethtool (1:6.15-3build1) ...
657s Setting up python3-referencing (0.36.2-1ubuntu2) ...
657s Setting up libxkbcommon0:amd64 (1.13.1-1) ...
657s Setting up cryptsetup-bin (2:2.8.0-1ubuntu3) ...
657s Setting up linux-headers-6.19.0-3-generic (6.19.0-3.3) ...
657s Setting up tcpdump (4.99.5-2ubuntu3) ...
658s Setting up linux-image-generic (6.19.0-3.3) ...
658s Setting up apt (3.1.15) ...
658s Setting up wget (1.25.0-2ubuntu4) ...
658s Setting up libgirepository-2.0-0:amd64 (2.87.2-2) ...
658s Setting up libpython3.14-stdlib:amd64 (3.14.2-1) ...
658s Setting up iptables (1.8.11-2ubuntu3) ...
659s Setting up iproute2 (6.18.0-1ubuntu1) ...
659s Setting up linux-headers-generic (6.19.0-3.3) ...
659s Setting up dbus-daemon (1.16.2-2ubuntu3) ...
659s Setting up gir1.2-girepository-3.0:amd64 (2.87.2-2) ...
659s Setting up hwdata (0.394-1build1) ...
659s Setting up dbus-user-session (1.16.2-2ubuntu3) ...
659s Setting up dbus (1.16.2-2ubuntu3) ...
659s A reboot is required to replace the running dbus-daemon.
659s Please reboot the system when convenient.
659s Setting up pciutils (1:3.14.0-1build2) ...
659s Setting up python3-markdown-it (3.0.0-3build1) ...
659s Setting up libdrm2:amd64 (2.4.131-1) ...
659s Setting up libpython3.14:amd64 (3.14.2-1) ...
659s Setting up linux-tools-common (6.19.0-3.3) ...
659s Setting up libdrm-amdgpu1:amd64 (2.4.131-1) ...
659s Setting up linux-headers-virtual (6.19.0-3.3) ...
659s Setting up linux-generic (6.19.0-3.3) ...
660s Setting up linux-tools-6.19.0-3 (6.19.0-3.3) ...
660s Setting up ubuntu-standard (1.564) ...
660s Setting up linux-virtual (6.19.0-3.3) ...
660s Setting up linux-perf (6.19.0-3.3) ...
660s Setting up linux-tools-6.19.0-3-generic (6.19.0-3.3) ...
660s Processing triggers for debianutils (5.23.2build1) ...
660s Processing triggers for install-info (7.2-5) ...
660s Processing triggers for initramfs-tools (0.150ubuntu7) ...
660s update-initramfs: Generating /boot/initrd.img-6.18.0-9-generic
671s Processing triggers for libc-bin (2.42-2ubuntu4) ...
671s Processing triggers for linux-image-6.19.0-3-generic (6.19.0-3.3+1) ...
671s /etc/kernel/postinst.d/initramfs-tools:
671s update-initramfs: Generating /boot/initrd.img-6.19.0-3-generic
682s /etc/kernel/postinst.d/zz-update-grub:
682s Sourcing file `/etc/default/grub'
682s Sourcing file `/etc/default/grub.d/50-cloudimg-settings.cfg'
682s Sourcing file `/etc/default/grub.d/90-autopkgtest.cfg'
682s Generating grub configuration file ...
682s Found linux image: /boot/vmlinuz-6.19.0-3-generic
682s Found initrd image: /boot/initrd.img-6.19.0-3-generic
682s Found linux image: /boot/vmlinuz-6.18.0-9-generic
682s Found initrd image: /boot/initrd.img-6.18.0-9-generic
682s Warning: os-prober will not be executed to detect other bootable partitions.
682s Systems on them will not be added to the GRUB boot configuration.
682s Check GRUB_DISABLE_OS_PROBER documentation entry.
682s Adding boot menu entry for UEFI Firmware Settings ...
682s done
683s autopkgtest [23:35:41]: upgrading testbed (apt dist-upgrade and autopurge)
684s Reading package lists...
684s Building dependency tree...
684s Reading state information...
684s Calculating upgrade...
685s The following package was automatically installed and is no longer required:
685s   libpython3.13
685s Use 'sudo apt autoremove' to remove it.
685s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded.
685s Reading package lists...
685s Building dependency tree...
685s Reading state information...
685s Solving dependencies...
686s The following packages will be REMOVED:
686s   libpython3.13*
686s 0 upgraded, 0 newly installed, 1 to remove and 0 not upgraded.
686s After this operation, 7599 kB disk space will be freed.
686s (Reading database ... 
(Reading database ... 5%
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(Reading database ... 85%
(Reading database ... 90%
(Reading database ... 95%
(Reading database ... 100%
(Reading database ... 125268 files and directories currently installed.)
686s Removing libpython3.13:amd64 (3.13.11-1) ...
686s Processing triggers for libc-bin (2.42-2ubuntu4) ...
687s autopkgtest [23:35:45]: rebooting testbed after setup commands that affected boot
720s autopkgtest [23:36:18]: testbed running kernel: Linux 6.19.0-3-generic #3-Ubuntu SMP PREEMPT_DYNAMIC Fri Jan 23 20:01:24 UTC 2026
722s autopkgtest [23:36:20]: @@@@@@@@@@@@@@@@@@@@ apt-source r-cran-adegraphics
729s Get:1 http://ftpmaster.internal/ubuntu resolute/universe r-cran-adegraphics 1.0-22-1 (dsc) [2404 B]
729s Get:2 http://ftpmaster.internal/ubuntu resolute/universe r-cran-adegraphics 1.0-22-1 (tar) [2847 kB]
729s Get:3 http://ftpmaster.internal/ubuntu resolute/universe r-cran-adegraphics 1.0-22-1 (diff) [3500 B]
729s gpgv: Signature made Thu Dec 11 02:52:52 2025 UTC
729s gpgv:                using RSA key 73471499CC60ED9EEE805946C5BD6C8F2295D502
729s gpgv:                issuer "plessy@debian.org"
729s gpgv: Can't check signature: No public key
729s dpkg-source: warning: cannot verify inline signature for ./r-cran-adegraphics_1.0-22-1.dsc: no acceptable signature found
729s autopkgtest [23:36:27]: testing package r-cran-adegraphics version 1.0-22-1
730s autopkgtest [23:36:28]: build not needed
731s autopkgtest [23:36:29]: test run-unit-test: preparing testbed
731s Reading package lists...
732s Building dependency tree...
732s Reading state information...
732s Solving dependencies...
732s The following NEW packages will be installed:
732s   fontconfig fontconfig-config fonts-dejavu-core fonts-dejavu-mono
732s   fonts-font-awesome fonts-glyphicons-halflings fonts-mathjax gdal-data
732s   gdal-plugins javascript-common libabsl20260107 libaec0 libaom3
732s   libarmadillo15 libarpack2t64 libavif16 libblas3 libblosc1 libcairo2
732s   libcfitsio10t64 libdatrie1 libdav1d7 libde265-0 libdeflate0 libfontconfig1
732s   libfreexl1 libfyba0t64 libgav1-2 libgdal38 libgeos-c1t64 libgeos3.14.1
732s   libgeotiff5 libgfortran5 libgif7 libgomp1 libgpgmepp6t64 libgraphite2-3
732s   libharfbuzz0b libhdf4-0 libhdf5-310 libhdf5-hl-310 libheif-plugin-aomdec
732s   libheif-plugin-libde265 libheif1 libhwy1t64 libice6 libjbig0 libjpeg-turbo8
732s   libjpeg8 libjs-bootstrap libjs-bootstrap4 libjs-d3 libjs-es5-shim
732s   libjs-highlight.js libjs-jquery libjs-jquery-datatables
732s   libjs-jquery-selectize.js libjs-jquery-ui libjs-json libjs-mathjax
732s   libjs-microplugin.js libjs-modernizr libjs-popper.js libjs-prettify
732s   libjs-sifter.js libjs-twitter-bootstrap-datepicker libjxl0.11 libkmlbase1t64
732s   libkmldom1t64 libkmlengine1t64 liblapack3 liblcms2-2 liblerc4 libltdl7
732s   liblua5.4-0 libminizip1t64 libmuparser2v5 libmysqlclient24 libnetcdf22
732s   libnlopt0 libodbc2 libodbcinst2 libopenjp2-7 libpango-1.0-0
732s   libpangocairo-1.0-0 libpangoft2-1.0-0 libpaper-utils libpaper2 libpixman-1-0
732s   libpoppler147 libpq5 libproj25 libqhull-r8.0 librttopo1 libsharpyuv0 libsm6
732s   libsnappy1v5 libspatialite8t64 libsuperlu7 libsz2 libtcl8.6 libthai-data
732s   libthai0 libtiff6 libtk8.6 libudunits2-0 libudunits2-data liburiparser1
732s   libwebp7 libxcb-render0 libxcb-shm0 libxerces-c3.2t64 libxft2 libxrender1
732s   libxss1 libxt6t64 libyuv0 mysql-common node-bootstrap-sass node-html5shiv
732s   node-normalize.css pandoc pandoc-data proj-data r-base-core r-cran-abind
732s   r-cran-ade4 r-cran-adegraphics r-cran-backports r-cran-base64enc r-cran-boot
732s   r-cran-broom r-cran-bslib r-cran-cachem r-cran-car r-cran-cardata
732s   r-cran-caret r-cran-class r-cran-classint r-cran-cli r-cran-clock
732s   r-cran-codetools r-cran-colorspace r-cran-commonmark r-cran-conquer
732s   r-cran-cowplot r-cran-cpp11 r-cran-crayon r-cran-curl r-cran-data.table
732s   r-cran-dbi r-cran-deldir r-cran-deriv r-cran-diagram r-cran-digest
732s   r-cran-doby r-cran-dplyr r-cran-e1071 r-cran-evaluate r-cran-fansi
732s   r-cran-farver r-cran-fastmap r-cran-fontawesome r-cran-foreach
732s   r-cran-forecast r-cran-formula r-cran-fracdiff r-cran-fs r-cran-future
732s   r-cran-future.apply r-cran-generics r-cran-ggplot2 r-cran-globals
732s   r-cran-glue r-cran-gower r-cran-gtable r-cran-guerry r-cran-hardhat
732s   r-cran-highr r-cran-htmltools r-cran-httpuv r-cran-interp r-cran-ipred
732s   r-cran-isoband r-cran-iterators r-cran-jpeg r-cran-jquerylib r-cran-jsonlite
732s   r-cran-kernsmooth r-cran-knitr r-cran-labeling r-cran-later r-cran-lattice
732s   r-cran-latticeextra r-cran-lava r-cran-lifecycle r-cran-listenv
732s   r-cran-littler r-cran-lme4 r-cran-lmtest r-cran-lubridate r-cran-magrittr
732s   r-cran-markdown r-cran-mass r-cran-matrix r-cran-matrixmodels
732s   r-cran-matrixstats r-cran-memoise r-cran-mgcv r-cran-microbenchmark
732s   r-cran-mime r-cran-minqa r-cran-modelmetrics r-cran-modelr r-cran-nlme
732s   r-cran-nloptr r-cran-nnet r-cran-numderiv r-cran-parallelly r-cran-pbkrtest
732s   r-cran-pillar r-cran-pixmap r-cran-pkgconfig r-cran-pkgkitten r-cran-plyr
732s   r-cran-png r-cran-proc r-cran-prodlim r-cran-progressr r-cran-promises
732s   r-cran-proxy r-cran-purrr r-cran-quadprog r-cran-quantmod r-cran-quantreg
732s   r-cran-r6 r-cran-rappdirs r-cran-rbibutils r-cran-rcolorbrewer r-cran-rcpp
732s   r-cran-rcpparmadillo r-cran-rcppeigen r-cran-rdpack r-cran-recipes
732s   r-cran-reformulas r-cran-reshape2 r-cran-rlang r-cran-rmarkdown r-cran-rpart
732s   r-cran-s2 r-cran-sass r-cran-scales r-cran-sf r-cran-shape r-cran-shiny
732s   r-cran-sourcetools r-cran-sp r-cran-sparsem r-cran-sparsevctrs r-cran-spdata
732s   r-cran-spdep r-cran-squarem r-cran-statmod r-cran-stringi r-cran-stringr
732s   r-cran-survival r-cran-tibble r-cran-tidyr r-cran-tidyselect
732s   r-cran-timechange r-cran-timedate r-cran-tinytex r-cran-tseries r-cran-ttr
732s   r-cran-tzdb r-cran-units r-cran-urca r-cran-utf8 r-cran-vctrs
732s   r-cran-viridislite r-cran-withr r-cran-wk r-cran-xfun r-cran-xtable
732s   r-cran-xts r-cran-yaml r-cran-zoo unixodbc-common unzip x11-common xdg-utils
732s   zip
732s 0 upgraded, 292 newly installed, 0 to remove and 0 not upgraded.
732s Need to get 268 MB of archives.
732s After this operation, 745 MB of additional disk space will be used.
732s Get:1 http://ftpmaster.internal/ubuntu resolute/main amd64 fonts-dejavu-mono all 2.37-8build1 [502 kB]
732s Get:2 http://ftpmaster.internal/ubuntu resolute/main amd64 fonts-dejavu-core all 2.37-8build1 [834 kB]
735s Get:3 http://ftpmaster.internal/ubuntu resolute/main amd64 fontconfig-config amd64 2.17.1-3ubuntu1 [38.5 kB]
735s Get:4 http://ftpmaster.internal/ubuntu resolute/main amd64 libfontconfig1 amd64 2.17.1-3ubuntu1 [144 kB]
735s Get:5 http://ftpmaster.internal/ubuntu resolute/main amd64 fontconfig amd64 2.17.1-3ubuntu1 [180 kB]
735s Get:6 http://ftpmaster.internal/ubuntu resolute/main amd64 fonts-font-awesome all 5.0.10+really4.7.0~dfsg-4.1build1 [531 kB]
736s Get:7 http://ftpmaster.internal/ubuntu resolute/universe amd64 fonts-glyphicons-halflings all 1.009~3.4.1+dfsg-6 [119 kB]
736s Get:8 http://ftpmaster.internal/ubuntu resolute/main amd64 fonts-mathjax all 2.7.9+dfsg-1build1 [2283 kB]
741s Get:9 http://ftpmaster.internal/ubuntu resolute/universe amd64 gdal-data all 3.12.1+dfsg-1 [278 kB]
741s Get:10 http://ftpmaster.internal/ubuntu resolute/universe amd64 gdal-plugins amd64 3.12.1+dfsg-1 [26.8 kB]
741s Get:11 http://ftpmaster.internal/ubuntu resolute/main amd64 javascript-common all 12+nmu1build1 [4864 B]
741s Get:12 http://ftpmaster.internal/ubuntu resolute/main amd64 libabsl20260107 amd64 20260107.0-1 [587 kB]
742s Get:13 http://ftpmaster.internal/ubuntu resolute/universe amd64 libaec0 amd64 1.1.5-1 [22.5 kB]
742s Get:14 http://ftpmaster.internal/ubuntu resolute/main amd64 libaom3 amd64 3.13.1-2 [1970 kB]
746s Get:15 http://ftpmaster.internal/ubuntu resolute/main amd64 libblas3 amd64 3.12.1-7ubuntu1 [260 kB]
746s Get:16 http://ftpmaster.internal/ubuntu resolute/main amd64 libgfortran5 amd64 15.2.0-12ubuntu1 [939 kB]
747s Get:17 http://ftpmaster.internal/ubuntu resolute/main amd64 liblapack3 amd64 3.12.1-7ubuntu1 [2739 kB]
751s Get:18 http://ftpmaster.internal/ubuntu resolute/universe amd64 libarpack2t64 amd64 3.9.1-6 [108 kB]
751s Get:19 http://ftpmaster.internal/ubuntu resolute/universe amd64 libsuperlu7 amd64 7.0.1+dfsg1-2 [186 kB]
751s Get:20 http://ftpmaster.internal/ubuntu resolute/universe amd64 libarmadillo15 amd64 1:15.2.1+dfsg-2 [109 kB]
752s Get:21 http://ftpmaster.internal/ubuntu resolute/universe amd64 libdav1d7 amd64 1.5.3-1 [626 kB]
753s Get:22 http://ftpmaster.internal/ubuntu resolute/universe amd64 libgav1-2 amd64 0.20.0-2build1 [402 kB]
753s Get:23 http://ftpmaster.internal/ubuntu resolute/main amd64 libjpeg-turbo8 amd64 2.1.5-4ubuntu3 [156 kB]
753s Get:24 http://ftpmaster.internal/ubuntu resolute/main amd64 libjpeg8 amd64 8c-2ubuntu11 [2148 B]
753s Get:25 http://ftpmaster.internal/ubuntu resolute/main amd64 libyuv0 amd64 0.0.1922.20260106-1 [184 kB]
753s Get:26 http://ftpmaster.internal/ubuntu resolute/universe amd64 libavif16 amd64 1.3.0-1ubuntu3 [117 kB]
753s Get:27 http://ftpmaster.internal/ubuntu resolute/main amd64 libsnappy1v5 amd64 1.2.2-2 [30.8 kB]
753s Get:28 http://ftpmaster.internal/ubuntu resolute/universe amd64 libblosc1 amd64 1.21.5+ds-2 [35.8 kB]
753s Get:29 http://ftpmaster.internal/ubuntu resolute/main amd64 libpixman-1-0 amd64 0.46.4-1 [287 kB]
753s Get:30 http://ftpmaster.internal/ubuntu resolute/main amd64 libxcb-render0 amd64 1.17.0-2ubuntu1 [16.2 kB]
753s Get:31 http://ftpmaster.internal/ubuntu resolute/main amd64 libxcb-shm0 amd64 1.17.0-2ubuntu1 [5808 B]
753s Get:32 http://ftpmaster.internal/ubuntu resolute/main amd64 libxrender1 amd64 1:0.9.12-1 [19.8 kB]
753s Get:33 http://ftpmaster.internal/ubuntu resolute/main amd64 libcairo2 amd64 1.18.4-3 [579 kB]
754s Get:34 http://ftpmaster.internal/ubuntu resolute/universe amd64 libcfitsio10t64 amd64 4.6.3-1 [549 kB]
755s Get:35 http://ftpmaster.internal/ubuntu resolute/main amd64 libdatrie1 amd64 0.2.14-1 [19.8 kB]
755s Get:36 http://ftpmaster.internal/ubuntu resolute/main amd64 libde265-0 amd64 1.0.16-1build1 [172 kB]
755s Get:37 http://ftpmaster.internal/ubuntu resolute/main amd64 libdeflate0 amd64 1.23-2build1 [51.6 kB]
755s Get:38 http://ftpmaster.internal/ubuntu resolute/universe amd64 libfyba0t64 amd64 4.1.1-11build2 [120 kB]
755s Get:39 http://ftpmaster.internal/ubuntu resolute/universe amd64 libminizip1t64 amd64 1:1.3.dfsg+really1.3.1-1ubuntu2 [23.5 kB]
755s Get:40 http://ftpmaster.internal/ubuntu resolute/universe amd64 libfreexl1 amd64 2.0.0-1build3 [42.9 kB]
755s Get:41 http://ftpmaster.internal/ubuntu resolute/universe amd64 libgeos3.14.1 amd64 3.14.1-2 [976 kB]
757s Get:42 http://ftpmaster.internal/ubuntu resolute/universe amd64 libgeos-c1t64 amd64 3.14.1-2 [116 kB]
757s Get:43 http://ftpmaster.internal/ubuntu resolute/universe amd64 proj-data all 9.7.1-1 [7950 kB]
770s Get:44 http://ftpmaster.internal/ubuntu resolute/main amd64 libjbig0 amd64 2.1-6.1ubuntu3 [30.0 kB]
770s Get:45 http://ftpmaster.internal/ubuntu resolute/main amd64 liblerc4 amd64 4.0.0+ds-5ubuntu2 [207 kB]
770s Get:46 http://ftpmaster.internal/ubuntu resolute/main amd64 libsharpyuv0 amd64 1.5.0-0.1build1 [17.6 kB]
770s Get:47 http://ftpmaster.internal/ubuntu resolute/main amd64 libwebp7 amd64 1.5.0-0.1build1 [264 kB]
770s Get:48 http://ftpmaster.internal/ubuntu resolute/main amd64 libtiff6 amd64 4.7.0-3ubuntu3 [209 kB]
770s Get:49 http://ftpmaster.internal/ubuntu resolute/universe amd64 libproj25 amd64 9.7.1-1 [1499 kB]
775s Get:50 http://ftpmaster.internal/ubuntu resolute/universe amd64 libgeotiff5 amd64 1.7.4-1build1 [61.5 kB]
775s Get:51 http://ftpmaster.internal/ubuntu resolute/main amd64 libgif7 amd64 5.2.2-1ubuntu3 [36.0 kB]
775s Get:52 http://ftpmaster.internal/ubuntu resolute/universe amd64 libsz2 amd64 1.1.5-1 [17.9 kB]
775s Get:53 http://ftpmaster.internal/ubuntu resolute/universe amd64 libhdf4-0 amd64 4.3.1-2 [318 kB]
775s Get:54 http://ftpmaster.internal/ubuntu resolute/universe amd64 libhdf5-310 amd64 1.14.6+repack-2 [1433 kB]
778s Get:55 http://ftpmaster.internal/ubuntu resolute/main amd64 libheif-plugin-aomdec amd64 1.21.2-1 [14.2 kB]
778s Get:56 http://ftpmaster.internal/ubuntu resolute/main amd64 libheif-plugin-libde265 amd64 1.21.2-1 [9978 B]
778s Get:57 http://ftpmaster.internal/ubuntu resolute/main amd64 libheif1 amd64 1.21.2-1 [544 kB]
779s Get:58 http://ftpmaster.internal/ubuntu resolute/main amd64 libhwy1t64 amd64 1.3.0-2 [768 kB]
781s Get:59 http://ftpmaster.internal/ubuntu resolute/main amd64 liblcms2-2 amd64 2.17-1 [170 kB]
781s Get:60 http://ftpmaster.internal/ubuntu resolute/main amd64 libjxl0.11 amd64 0.11.1-6ubuntu1 [1122 kB]
784s Get:61 http://ftpmaster.internal/ubuntu resolute/universe amd64 liburiparser1 amd64 0.9.8+dfsg-2 [46.8 kB]
784s Get:62 http://ftpmaster.internal/ubuntu resolute/universe amd64 libkmlbase1t64 amd64 1.3.0-13 [51.7 kB]
784s Get:63 http://ftpmaster.internal/ubuntu resolute/universe amd64 libkmldom1t64 amd64 1.3.0-13 [156 kB]
784s Get:64 http://ftpmaster.internal/ubuntu resolute/universe amd64 libkmlengine1t64 amd64 1.3.0-13 [74.1 kB]
784s Get:65 http://ftpmaster.internal/ubuntu resolute/main amd64 libgomp1 amd64 15.2.0-12ubuntu1 [151 kB]
784s Get:66 http://ftpmaster.internal/ubuntu resolute/universe amd64 libmuparser2v5 amd64 2.3.4-2 [143 kB]
784s Get:67 http://ftpmaster.internal/ubuntu resolute/main amd64 mysql-common all 5.8+1.1.1ubuntu2 [7002 B]
784s Get:68 http://ftpmaster.internal/ubuntu resolute/main amd64 libmysqlclient24 amd64 8.4.8-0ubuntu1 [1258 kB]
788s Get:69 http://ftpmaster.internal/ubuntu resolute/universe amd64 libhdf5-hl-310 amd64 1.14.6+repack-2 [59.9 kB]
788s Get:70 http://ftpmaster.internal/ubuntu resolute/universe amd64 libnetcdf22 amd64 1:4.9.3-1build1 [561 kB]
789s Get:71 http://ftpmaster.internal/ubuntu resolute/main amd64 libltdl7 amd64 2.5.4-9 [43.7 kB]
789s Get:72 http://ftpmaster.internal/ubuntu resolute/main amd64 libodbc2 amd64 2.3.14-1 [160 kB]
789s Get:73 http://ftpmaster.internal/ubuntu resolute/main amd64 unixodbc-common all 2.3.14-1 [8792 B]
789s Get:74 http://ftpmaster.internal/ubuntu resolute/main amd64 libodbcinst2 amd64 2.3.14-1 [32.0 kB]
789s Get:75 http://ftpmaster.internal/ubuntu resolute/main amd64 libopenjp2-7 amd64 2.5.4-1 [188 kB]
789s Get:76 http://ftpmaster.internal/ubuntu resolute/main amd64 libgpgmepp6t64 amd64 1.24.2-3ubuntu2 [124 kB]
789s Get:77 http://ftpmaster.internal/ubuntu resolute/main amd64 libpoppler147 amd64 25.03.0-11.1 [1224 kB]
792s Get:78 http://ftpmaster.internal/ubuntu resolute/main amd64 libpq5 amd64 18.1-2 [155 kB]
792s Get:79 http://ftpmaster.internal/ubuntu resolute/universe amd64 libqhull-r8.0 amd64 2020.2-8 [197 kB]
792s Get:80 http://ftpmaster.internal/ubuntu resolute/universe amd64 librttopo1 amd64 1.1.0-4build1 [189 kB]
792s Get:81 http://ftpmaster.internal/ubuntu resolute/universe amd64 libspatialite8t64 amd64 5.1.0-3ubuntu1 [1927 kB]
797s Get:82 http://ftpmaster.internal/ubuntu resolute/universe amd64 libxerces-c3.2t64 amd64 3.2.4+debian-1.3build2 [991 kB]
799s Get:83 http://ftpmaster.internal/ubuntu resolute/universe amd64 libgdal38 amd64 3.12.1+dfsg-1 [11.4 MB]
822s Get:84 http://ftpmaster.internal/ubuntu resolute/main amd64 libgraphite2-3 amd64 1.3.14-11ubuntu1 [73.7 kB]
822s Get:85 http://ftpmaster.internal/ubuntu resolute/main amd64 libharfbuzz0b amd64 12.3.2-1 [519 kB]
822s Get:86 http://ftpmaster.internal/ubuntu resolute/main amd64 x11-common all 1:7.7+24ubuntu1 [22.4 kB]
822s Get:87 http://ftpmaster.internal/ubuntu resolute/main amd64 libice6 amd64 2:1.1.1-1build1 [44.0 kB]
822s Get:88 http://ftpmaster.internal/ubuntu resolute/universe amd64 libjs-bootstrap all 3.4.1+dfsg-6 [129 kB]
822s Get:89 http://ftpmaster.internal/ubuntu resolute/universe amd64 libjs-popper.js all 1.16.1+ds-6build1 [53.8 kB]
822s Get:90 http://ftpmaster.internal/ubuntu resolute/universe amd64 libjs-bootstrap4 all 4.6.2+dfsg-1 [532 kB]
823s Get:91 http://ftpmaster.internal/ubuntu resolute/universe amd64 libjs-d3 all 3.5.17-4build1 [136 kB]
823s Get:92 http://ftpmaster.internal/ubuntu resolute/universe amd64 libjs-es5-shim all 4.6.7-2 [39.8 kB]
823s Get:93 http://ftpmaster.internal/ubuntu resolute/universe amd64 libjs-highlight.js all 10.7.3+dfsg-2 [144 kB]
823s Get:94 http://ftpmaster.internal/ubuntu resolute/main amd64 libjs-jquery all 3.7.1+dfsg+~3.5.33-1build1 [321 kB]
823s Get:95 http://ftpmaster.internal/ubuntu resolute/universe amd64 libjs-jquery-datatables all 1.11.5+dfsg-2build1 [145 kB]
823s Get:96 http://ftpmaster.internal/ubuntu resolute/universe amd64 libjs-sifter.js all 0.6.0+dfsg-3 [12.6 kB]
823s Get:97 http://ftpmaster.internal/ubuntu resolute/universe amd64 libjs-microplugin.js all 0.0.3+dfsg-2 [3946 B]
823s Get:98 http://ftpmaster.internal/ubuntu resolute/universe amd64 libjs-jquery-selectize.js all 0.12.6+dfsg-1.1 [51.0 kB]
823s Get:99 http://ftpmaster.internal/ubuntu resolute/universe amd64 libjs-jquery-ui all 1.13.2+dfsg-1build1 [251 kB]
823s Get:100 http://ftpmaster.internal/ubuntu resolute/universe amd64 libjs-json all 0~20221030+~1.0.8-1build1 [20.6 kB]
823s Get:101 http://ftpmaster.internal/ubuntu resolute/universe amd64 libjs-prettify all 2015.12.04+dfsg-3 [41.4 kB]
823s Get:102 http://ftpmaster.internal/ubuntu resolute/main amd64 liblua5.4-0 amd64 5.4.8-1 [174 kB]
823s Get:103 http://ftpmaster.internal/ubuntu resolute/main amd64 libthai-data all 0.1.30-1 [155 kB]
823s Get:104 http://ftpmaster.internal/ubuntu resolute/main amd64 libthai0 amd64 0.1.30-1 [19.2 kB]
823s Get:105 http://ftpmaster.internal/ubuntu resolute/main amd64 libpango-1.0-0 amd64 1.57.0-1 [241 kB]
823s Get:106 http://ftpmaster.internal/ubuntu resolute/main amd64 libpangoft2-1.0-0 amd64 1.57.0-1 [53.3 kB]
823s Get:107 http://ftpmaster.internal/ubuntu resolute/main amd64 libpangocairo-1.0-0 amd64 1.57.0-1 [29.0 kB]
823s Get:108 http://ftpmaster.internal/ubuntu resolute/main amd64 libpaper2 amd64 2.2.5-0.3build1 [17.3 kB]
823s Get:109 http://ftpmaster.internal/ubuntu resolute/main amd64 libpaper-utils amd64 2.2.5-0.3build1 [15.6 kB]
823s Get:110 http://ftpmaster.internal/ubuntu resolute/main amd64 libsm6 amd64 2:1.2.6-1build1 [16.9 kB]
823s Get:111 http://ftpmaster.internal/ubuntu resolute/main amd64 libtcl8.6 amd64 8.6.17+dfsg-1build1 [1003 kB]
825s Get:112 http://ftpmaster.internal/ubuntu resolute/main amd64 libxft2 amd64 2.3.6-1build2 [45.1 kB]
825s Get:113 http://ftpmaster.internal/ubuntu resolute/main amd64 libxss1 amd64 1:1.2.3-1build4 [7084 B]
825s Get:114 http://ftpmaster.internal/ubuntu resolute/main amd64 libtk8.6 amd64 8.6.17-1 [823 kB]
827s Get:115 http://ftpmaster.internal/ubuntu resolute/universe amd64 libudunits2-data all 2.2.28-8 [19.3 kB]
827s Get:116 http://ftpmaster.internal/ubuntu resolute/universe amd64 libudunits2-0 amd64 2.2.28-8 [54.6 kB]
827s Get:117 http://ftpmaster.internal/ubuntu resolute/main amd64 libxt6t64 amd64 1:1.2.1-1.3 [173 kB]
827s Get:118 http://ftpmaster.internal/ubuntu resolute/universe amd64 node-bootstrap-sass all 3.4.3-2 [187 kB]
827s Get:119 http://ftpmaster.internal/ubuntu resolute/universe amd64 node-html5shiv all 3.7.3+dfsg-5 [13.5 kB]
827s Get:120 http://ftpmaster.internal/ubuntu resolute/universe amd64 node-normalize.css all 8.0.1-5.1 [10.4 kB]
827s Get:121 http://ftpmaster.internal/ubuntu resolute/universe amd64 pandoc-data all 3.1.11.1-3build1 [78.8 kB]
827s Get:122 http://ftpmaster.internal/ubuntu resolute/universe amd64 pandoc amd64 3.1.11.1+ds-4 [27.2 MB]
872s Get:123 http://ftpmaster.internal/ubuntu resolute/main amd64 zip amd64 3.0-15ubuntu3 [175 kB]
872s Get:124 http://ftpmaster.internal/ubuntu resolute/main amd64 unzip amd64 6.0-29ubuntu1 [180 kB]
872s Get:125 http://ftpmaster.internal/ubuntu resolute/main amd64 xdg-utils all 1.2.1-2ubuntu2 [66.1 kB]
872s Get:126 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-base-core amd64 4.5.2-1ubuntu2 [28.8 MB]
927s Get:127 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-abind all 1.4-8-1build1 [67.0 kB]
927s Get:128 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-mass amd64 7.3-65-1 [1116 kB]
929s Get:129 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-pixmap all 0.4-14-1 [217 kB]
929s Get:130 http://ftpmaster.internal/ubuntu resolute-proposed/universe amd64 r-cran-lattice amd64 0.22-9-1 [1399 kB]
932s Get:131 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-sp amd64 1:2.2-0+dfsg-1 [1444 kB]
934s Get:132 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-littler amd64 0.3.22-1 [85.5 kB]
934s Get:133 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-pkgkitten all 0.2.4-1 [27.2 kB]
934s Get:134 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-rcpp amd64 1.1.0-1 [2021 kB]
938s Get:135 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-rcpparmadillo amd64 15.2.3-1-1 [919 kB]
939s Get:136 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-ade4 amd64 1.7-23-1 [5414 kB]
950s Get:137 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-kernsmooth amd64 2.23-26-1build1 [93.6 kB]
950s Get:138 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-png amd64 0.1-8-1build2 [40.6 kB]
950s Get:139 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-jpeg amd64 0.1-10-1 [31.4 kB]
950s Get:140 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-rcolorbrewer all 1.1-3-1build2 [54.0 kB]
950s Get:141 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-deldir amd64 2.0-4-1build1 [270 kB]
950s Get:142 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-matrix amd64 1.7-4-1 [4220 kB]
959s Get:143 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-rcppeigen amd64 0.3.4.0.2-1 [1428 kB]
962s Get:144 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-interp amd64 1.1-6-1 [1454 kB]
964s Get:145 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-latticeextra all 0.6-31-1 [2177 kB]
968s Get:146 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-adegraphics all 1.0-22-1 [3298 kB]
973s Get:147 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-backports amd64 1.5.0-2 [121 kB]
973s Get:148 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-base64enc amd64 0.1-3-3build1 [28.5 kB]
973s Get:149 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-boot all 1.3-32-1 [636 kB]
975s Get:150 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-cli amd64 3.6.4-1 [1394 kB]
977s Get:151 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-generics all 0.1.4-1 [84.0 kB]
977s Get:152 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-glue amd64 1.8.0-1 [164 kB]
977s Get:153 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-rlang amd64 1.1.5-3 [1721 kB]
982s Get:154 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-lifecycle all 1.0.5+dfsg-1 [120 kB]
982s Get:155 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-magrittr amd64 2.0.3-1 [154 kB]
982s Get:156 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-utf8 amd64 1.2.4-1 [140 kB]
982s Get:157 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-vctrs amd64 0.6.5-1 [1335 kB]
986s Get:158 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-pillar all 1.11.1+dfsg-1 [456 kB]
986s Get:159 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-r6 all 2.6.1-1 [101 kB]
986s Get:160 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-fansi amd64 1.0.6-2 [626 kB]
988s Get:161 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-pkgconfig all 2.0.3-2build2 [20.4 kB]
988s Get:162 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-tibble amd64 3.2.1+dfsg-3 [419 kB]
988s Get:163 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-withr all 3.0.2+dfsg-1 [214 kB]
988s Get:164 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-tidyselect amd64 1.2.1+dfsg-1 [222 kB]
988s Get:165 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-dplyr amd64 1.1.4-4 [1536 kB]
992s Get:166 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-purrr amd64 1.0.4-1 [552 kB]
993s Get:167 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-stringi amd64 1.8.4-1build2 [908 kB]
996s Get:168 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-stringr all 1.5.1-1 [290 kB]
996s Get:169 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-cpp11 all 0.5.3-1 [242 kB]
996s Get:170 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-tidyr amd64 1.3.1-1 [1156 kB]
999s Get:171 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-broom all 1.0.12+dfsg-1 [1708 kB]
1002s Get:172 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-fastmap amd64 1.2.0-1 [73.8 kB]
1002s Get:173 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-cachem amd64 1.1.0-1 [74.1 kB]
1002s Get:174 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-digest amd64 0.6.39-1 [203 kB]
1002s Get:175 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-htmltools amd64 0.5.8.1-1 [373 kB]
1002s Get:176 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-jquerylib all 0.1.4+dfsg-5 [13.7 kB]
1002s Get:177 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-jsonlite amd64 1.9.1+dfsg-1 [447 kB]
1002s Get:178 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-memoise all 2.0.1-1build1 [54.5 kB]
1002s Get:179 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-mime amd64 0.12-2 [35.8 kB]
1002s Get:180 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-fs amd64 1.6.5+dfsg-1 [246 kB]
1002s Get:181 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-rappdirs amd64 0.3.3-1build1 [49.3 kB]
1002s Get:182 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-sass amd64 0.4.9+dfsg-1 [1001 kB]
1004s Get:183 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-bslib all 0.9.0+dfsg-3build1 [4560 kB]
1012s Get:184 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-cardata all 3.0.6-1 [1687 kB]
1015s Get:185 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-formula all 1.2-5-1 [158 kB]
1015s Get:186 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-nlme amd64 3.1.168-1 [2320 kB]
1019s Get:187 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-mgcv amd64 1.9-4-1 [3556 kB]
1027s Get:188 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-nnet amd64 7.3-20-1 [116 kB]
1027s Get:189 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-minqa amd64 1.2.8-1 [119 kB]
1027s Get:190 http://ftpmaster.internal/ubuntu resolute/universe amd64 libnlopt0 amd64 2.7.1-7ubuntu1 [189 kB]
1027s Get:191 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-nloptr amd64 2.2.1-2 [251 kB]
1027s Get:192 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-rbibutils amd64 2.3-1 [1023 kB]
1029s Get:193 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-rdpack all 2.6.3-1 [636 kB]
1030s Get:194 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-reformulas all 0.4.4-1 [151 kB]
1030s Get:195 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-statmod amd64 1.5.0-1 [295 kB]
1030s Get:196 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-lme4 amd64 1.1-38-1 [4197 kB]
1038s Get:197 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-numderiv all 2016.8-1.1-3build1 [116 kB]
1038s Get:198 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-gtable all 0.3.6+dfsg-1 [199 kB]
1038s Get:199 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-isoband amd64 0.2.7-1 [1481 kB]
1040s Get:200 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-farver amd64 2.1.2-1 [1355 kB]
1043s Get:201 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-labeling all 0.4.3-1 [62.1 kB]
1043s Get:202 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-viridislite all 0.4.3-1 [1088 kB]
1045s Get:203 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-scales all 1.4.0-1 [725 kB]
1046s Get:204 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-ggplot2 all 3.5.1+dfsg-1 [3940 kB]
1053s Get:205 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-cowplot all 1.1.3+dfsg-1 [614 kB]
1055s Get:206 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-deriv all 4.2.0-1 [154 kB]
1055s Get:207 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-colorspace amd64 2.1-1+dfsg-1 [1563 kB]
1058s Get:208 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-fracdiff amd64 1.5-3-1 [108 kB]
1058s Get:209 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-zoo amd64 1.8-15-1 [1025 kB]
1060s Get:210 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-lmtest amd64 0.9.40-1build1 [400 kB]
1060s Get:211 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-timedate amd64 4052.112-1 [1298 kB]
1063s Get:212 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-quadprog amd64 1.5-8-1build2 [32.6 kB]
1063s Get:213 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-xts amd64 0.14.1-1 [1198 kB]
1066s Get:214 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-curl amd64 7.0.0+dfsg-1 [202 kB]
1066s Get:215 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-ttr amd64 0.24.4-1 [511 kB]
1066s Get:216 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-quantmod all 0.4.28-1 [1037 kB]
1069s Get:217 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-tseries amd64 0.10-59-3 [382 kB]
1069s Get:218 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-urca amd64 1.3-4-1build1 [1052 kB]
1072s Get:219 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-forecast amd64 8.23.0-1 [1569 kB]
1077s Get:220 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-modelr all 0.1.11-1 [195 kB]
1077s Get:221 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-microbenchmark amd64 1.5.0-1 [67.4 kB]
1077s Get:222 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-doby all 4.7.1-3 [4741 kB]
1090s Get:223 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-evaluate all 1.0.5-1 [117 kB]
1090s Get:224 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-xfun amd64 0.55+dfsg-1 [587 kB]
1093s Get:225 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-highr all 0.11+dfsg-1 [38.5 kB]
1093s Get:226 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-yaml amd64 2.3.10-1 [109 kB]
1093s Get:227 http://ftpmaster.internal/ubuntu resolute/main amd64 libjs-mathjax all 2.7.9+dfsg-1build1 [6017 kB]
1119s Get:228 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-knitr all 1.51+dfsg-1 [847 kB]
1120s Get:229 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-pbkrtest all 0.5.5-1 [217 kB]
1120s Get:230 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-sparsem amd64 1.84-2-1 [813 kB]
1122s Get:231 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-matrixmodels all 0.5-4-1 [351 kB]
1122s Get:232 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-survival amd64 3.8-6-1 [8274 kB]
1137s Get:233 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-matrixstats amd64 1.5.0-1 [542 kB]
1138s Get:234 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-class amd64 7.3-23-1 [92.7 kB]
1138s Get:235 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-proxy amd64 0.4-27-1 [182 kB]
1138s Get:236 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-e1071 amd64 1.7-17-1 [579 kB]
1139s Get:237 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-codetools all 0.2-20-1build1 [91.1 kB]
1139s Get:238 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-iterators all 1.0.14-1build1 [336 kB]
1139s Get:239 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-foreach all 1.5.2-1build1 [124 kB]
1139s Get:240 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-data.table amd64 1.17.0+dfsg-1 [2168 kB]
1142s Get:241 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-modelmetrics amd64 1.2.2.2-1build2 [155 kB]
1142s Get:242 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-plyr amd64 1.8.9-1 [832 kB]
1144s Get:243 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-proc amd64 1.18.5-1 [966 kB]
1146s Get:244 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-tzdb amd64 0.5.0-1 [538 kB]
1147s Get:245 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-clock amd64 0.7.2-1 [1903 kB]
1150s Get:246 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-gower amd64 1.0.2-1 [210 kB]
1150s Get:247 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-sparsevctrs amd64 0.2.0-2 [170 kB]
1150s Get:248 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-hardhat all 1.4.2+dfsg-1 [596 kB]
1151s Get:249 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-rpart amd64 4.1.24-1build1 [666 kB]
1153s Get:250 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-shape all 1.4.6.1-1 [749 kB]
1155s Get:251 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-diagram all 1.6.5-2 [656 kB]
1156s Get:252 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-globals all 0.19.0-1 [160 kB]
1156s Get:253 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-listenv all 0.10.0+dfsg-1 [113 kB]
1156s Get:254 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-parallelly amd64 1.42.0-1 [540 kB]
1157s Get:255 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-future all 1.34.0+dfsg-1 [646 kB]
1159s Get:256 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-future.apply all 1.11.3+dfsg-1 [175 kB]
1159s Get:257 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-progressr all 0.15.1-1 [353 kB]
1159s Get:258 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-squarem all 2021.1-1build1 [180 kB]
1159s Get:259 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-lava all 1.8.2+dfsg-1 [2210 kB]
1163s Get:260 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-prodlim amd64 2024.06.25-1 [415 kB]
1163s Get:261 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-ipred amd64 0.9-15-1 [386 kB]
1163s Get:262 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-timechange amd64 0.3.0-2 [201 kB]
1163s Get:263 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-lubridate amd64 1.9.4+dfsg-1 [1009 kB]
1165s Get:264 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-recipes all 1.1.0+dfsg-1 [2035 kB]
1169s Get:265 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-reshape2 amd64 1.4.4-2build2 [123 kB]
1169s Get:266 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-caret amd64 7.0-1+dfsg-1 [3460 kB]
1175s Get:267 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-conquer amd64 1.3.3-1 [499 kB]
1175s Get:268 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-quantreg amd64 6.1-1 [1455 kB]
1179s Get:269 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-car all 3.1-5-1 [1526 kB]
1184s Get:270 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-classint amd64 0.4-11+dfsg-1 [108 kB]
1184s Get:271 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-commonmark amd64 1.9.5-1 [138 kB]
1184s Get:272 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-crayon all 1.5.3-1 [165 kB]
1184s Get:273 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-dbi all 1.2.3-1build1 [855 kB]
1187s Get:274 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-fontawesome all 0.5.3-1 [1331 kB]
1191s Get:275 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-guerry all 1.8.3-1 [1230 kB]
1195s Get:276 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-later amd64 1.4.1+dfsg-1 [154 kB]
1195s Get:277 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-promises amd64 1.3.2+dfsg-1 [291 kB]
1196s Get:278 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-httpuv amd64 1.6.15+dfsg-1 [510 kB]
1196s Get:279 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-markdown all 1.13-1 [162 kB]
1196s Get:280 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-tinytex all 0.58-1 [148 kB]
1196s Get:281 http://ftpmaster.internal/ubuntu resolute/universe amd64 libjs-modernizr all 3.13.0-0.1build1 [100 kB]
1196s Get:282 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-xtable all 1:1.8-4-2build1 [691 kB]
1197s Get:283 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-sourcetools amd64 0.1.7-1-1 [48.1 kB]
1197s Get:284 http://ftpmaster.internal/ubuntu resolute/universe amd64 libjs-twitter-bootstrap-datepicker all 1.3.1+dfsg1-4.1 [28.5 kB]
1197s Get:285 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-shiny all 1.10.0+dfsg-2 [3124 kB]
1203s Get:286 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-rmarkdown all 2.30+dfsg-1 [1501 kB]
1208s Get:287 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-wk amd64 0.9.4-1 [1791 kB]
1211s Get:288 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-s2 amd64 1.1.9-1build1 [1815 kB]
1214s Get:289 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-units amd64 0.8-7+dfsg-2 [300 kB]
1214s Get:290 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-sf amd64 1.0-19+dfsg-2build2 [3298 kB]
1220s Get:291 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-spdata all 2.3.4-1 [3684 kB]
1227s Get:292 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-spdep amd64 1.3-5+dfsg-1 [2167 kB]
1231s Preconfiguring packages ...
1231s Fetched 268 MB in 8min 18s (537 kB/s)
1231s Selecting previously unselected package fonts-dejavu-mono.
1231s (Reading database ... 
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1231s Preparing to unpack .../000-fonts-dejavu-mono_2.37-8build1_all.deb ...
1231s Unpacking fonts-dejavu-mono (2.37-8build1) ...
1231s Selecting previously unselected package fonts-dejavu-core.
1231s Preparing to unpack .../001-fonts-dejavu-core_2.37-8build1_all.deb ...
1231s Unpacking fonts-dejavu-core (2.37-8build1) ...
1231s Selecting previously unselected package fontconfig-config.
1231s Preparing to unpack .../002-fontconfig-config_2.17.1-3ubuntu1_amd64.deb ...
1231s Unpacking fontconfig-config (2.17.1-3ubuntu1) ...
1231s Selecting previously unselected package libfontconfig1:amd64.
1231s Preparing to unpack .../003-libfontconfig1_2.17.1-3ubuntu1_amd64.deb ...
1231s Unpacking libfontconfig1:amd64 (2.17.1-3ubuntu1) ...
1231s Selecting previously unselected package fontconfig.
1231s Preparing to unpack .../004-fontconfig_2.17.1-3ubuntu1_amd64.deb ...
1231s Unpacking fontconfig (2.17.1-3ubuntu1) ...
1231s Selecting previously unselected package fonts-font-awesome.
1231s Preparing to unpack .../005-fonts-font-awesome_5.0.10+really4.7.0~dfsg-4.1build1_all.deb ...
1231s Unpacking fonts-font-awesome (5.0.10+really4.7.0~dfsg-4.1build1) ...
1231s Selecting previously unselected package fonts-glyphicons-halflings.
1231s Preparing to unpack .../006-fonts-glyphicons-halflings_1.009~3.4.1+dfsg-6_all.deb ...
1231s Unpacking fonts-glyphicons-halflings (1.009~3.4.1+dfsg-6) ...
1231s Selecting previously unselected package fonts-mathjax.
1231s Preparing to unpack .../007-fonts-mathjax_2.7.9+dfsg-1build1_all.deb ...
1231s Unpacking fonts-mathjax (2.7.9+dfsg-1build1) ...
1231s Selecting previously unselected package gdal-data.
1231s Preparing to unpack .../008-gdal-data_3.12.1+dfsg-1_all.deb ...
1231s Unpacking gdal-data (3.12.1+dfsg-1) ...
1231s Selecting previously unselected package gdal-plugins:amd64.
1231s Preparing to unpack .../009-gdal-plugins_3.12.1+dfsg-1_amd64.deb ...
1231s Unpacking gdal-plugins:amd64 (3.12.1+dfsg-1) ...
1231s Selecting previously unselected package javascript-common.
1231s Preparing to unpack .../010-javascript-common_12+nmu1build1_all.deb ...
1231s Unpacking javascript-common (12+nmu1build1) ...
1231s Selecting previously unselected package libabsl20260107:amd64.
1231s Preparing to unpack .../011-libabsl20260107_20260107.0-1_amd64.deb ...
1231s Unpacking libabsl20260107:amd64 (20260107.0-1) ...
1231s Selecting previously unselected package libaec0:amd64.
1231s Preparing to unpack .../012-libaec0_1.1.5-1_amd64.deb ...
1231s Unpacking libaec0:amd64 (1.1.5-1) ...
1231s Selecting previously unselected package libaom3:amd64.
1231s Preparing to unpack .../013-libaom3_3.13.1-2_amd64.deb ...
1231s Unpacking libaom3:amd64 (3.13.1-2) ...
1231s Selecting previously unselected package libblas3:amd64.
1231s Preparing to unpack .../014-libblas3_3.12.1-7ubuntu1_amd64.deb ...
1231s Unpacking libblas3:amd64 (3.12.1-7ubuntu1) ...
1231s Selecting previously unselected package libgfortran5:amd64.
1231s Preparing to unpack .../015-libgfortran5_15.2.0-12ubuntu1_amd64.deb ...
1231s Unpacking libgfortran5:amd64 (15.2.0-12ubuntu1) ...
1231s Selecting previously unselected package liblapack3:amd64.
1231s Preparing to unpack .../016-liblapack3_3.12.1-7ubuntu1_amd64.deb ...
1231s Unpacking liblapack3:amd64 (3.12.1-7ubuntu1) ...
1231s Selecting previously unselected package libarpack2t64:amd64.
1231s Preparing to unpack .../017-libarpack2t64_3.9.1-6_amd64.deb ...
1231s Unpacking libarpack2t64:amd64 (3.9.1-6) ...
1231s Selecting previously unselected package libsuperlu7:amd64.
1231s Preparing to unpack .../018-libsuperlu7_7.0.1+dfsg1-2_amd64.deb ...
1231s Unpacking libsuperlu7:amd64 (7.0.1+dfsg1-2) ...
1231s Selecting previously unselected package libarmadillo15.
1231s Preparing to unpack .../019-libarmadillo15_1%3a15.2.1+dfsg-2_amd64.deb ...
1231s Unpacking libarmadillo15 (1:15.2.1+dfsg-2) ...
1231s Selecting previously unselected package libdav1d7:amd64.
1231s Preparing to unpack .../020-libdav1d7_1.5.3-1_amd64.deb ...
1231s Unpacking libdav1d7:amd64 (1.5.3-1) ...
1232s Selecting previously unselected package libgav1-2:amd64.
1232s Preparing to unpack .../021-libgav1-2_0.20.0-2build1_amd64.deb ...
1232s Unpacking libgav1-2:amd64 (0.20.0-2build1) ...
1232s Selecting previously unselected package libjpeg-turbo8:amd64.
1232s Preparing to unpack .../022-libjpeg-turbo8_2.1.5-4ubuntu3_amd64.deb ...
1232s Unpacking libjpeg-turbo8:amd64 (2.1.5-4ubuntu3) ...
1232s Selecting previously unselected package libjpeg8:amd64.
1232s Preparing to unpack .../023-libjpeg8_8c-2ubuntu11_amd64.deb ...
1232s Unpacking libjpeg8:amd64 (8c-2ubuntu11) ...
1232s Selecting previously unselected package libyuv0:amd64.
1232s Preparing to unpack .../024-libyuv0_0.0.1922.20260106-1_amd64.deb ...
1232s Unpacking libyuv0:amd64 (0.0.1922.20260106-1) ...
1232s Selecting previously unselected package libavif16:amd64.
1232s Preparing to unpack .../025-libavif16_1.3.0-1ubuntu3_amd64.deb ...
1232s Unpacking libavif16:amd64 (1.3.0-1ubuntu3) ...
1232s Selecting previously unselected package libsnappy1v5:amd64.
1232s Preparing to unpack .../026-libsnappy1v5_1.2.2-2_amd64.deb ...
1232s Unpacking libsnappy1v5:amd64 (1.2.2-2) ...
1232s Selecting previously unselected package libblosc1:amd64.
1232s Preparing to unpack .../027-libblosc1_1.21.5+ds-2_amd64.deb ...
1232s Unpacking libblosc1:amd64 (1.21.5+ds-2) ...
1232s Selecting previously unselected package libpixman-1-0:amd64.
1232s Preparing to unpack .../028-libpixman-1-0_0.46.4-1_amd64.deb ...
1232s Unpacking libpixman-1-0:amd64 (0.46.4-1) ...
1232s Selecting previously unselected package libxcb-render0:amd64.
1232s Preparing to unpack .../029-libxcb-render0_1.17.0-2ubuntu1_amd64.deb ...
1232s Unpacking libxcb-render0:amd64 (1.17.0-2ubuntu1) ...
1232s Selecting previously unselected package libxcb-shm0:amd64.
1232s Preparing to unpack .../030-libxcb-shm0_1.17.0-2ubuntu1_amd64.deb ...
1232s Unpacking libxcb-shm0:amd64 (1.17.0-2ubuntu1) ...
1232s Selecting previously unselected package libxrender1:amd64.
1232s Preparing to unpack .../031-libxrender1_1%3a0.9.12-1_amd64.deb ...
1232s Unpacking libxrender1:amd64 (1:0.9.12-1) ...
1232s Selecting previously unselected package libcairo2:amd64.
1232s Preparing to unpack .../032-libcairo2_1.18.4-3_amd64.deb ...
1232s Unpacking libcairo2:amd64 (1.18.4-3) ...
1232s Selecting previously unselected package libcfitsio10t64:amd64.
1232s Preparing to unpack .../033-libcfitsio10t64_4.6.3-1_amd64.deb ...
1232s Unpacking libcfitsio10t64:amd64 (4.6.3-1) ...
1232s Selecting previously unselected package libdatrie1:amd64.
1232s Preparing to unpack .../034-libdatrie1_0.2.14-1_amd64.deb ...
1232s Unpacking libdatrie1:amd64 (0.2.14-1) ...
1232s Selecting previously unselected package libde265-0:amd64.
1232s Preparing to unpack .../035-libde265-0_1.0.16-1build1_amd64.deb ...
1232s Unpacking libde265-0:amd64 (1.0.16-1build1) ...
1232s Selecting previously unselected package libdeflate0:amd64.
1232s Preparing to unpack .../036-libdeflate0_1.23-2build1_amd64.deb ...
1232s Unpacking libdeflate0:amd64 (1.23-2build1) ...
1232s Selecting previously unselected package libfyba0t64:amd64.
1232s Preparing to unpack .../037-libfyba0t64_4.1.1-11build2_amd64.deb ...
1232s Unpacking libfyba0t64:amd64 (4.1.1-11build2) ...
1232s Selecting previously unselected package libminizip1t64:amd64.
1232s Preparing to unpack .../038-libminizip1t64_1%3a1.3.dfsg+really1.3.1-1ubuntu2_amd64.deb ...
1232s Unpacking libminizip1t64:amd64 (1:1.3.dfsg+really1.3.1-1ubuntu2) ...
1232s Selecting previously unselected package libfreexl1:amd64.
1232s Preparing to unpack .../039-libfreexl1_2.0.0-1build3_amd64.deb ...
1232s Unpacking libfreexl1:amd64 (2.0.0-1build3) ...
1232s Selecting previously unselected package libgeos3.14.1:amd64.
1232s Preparing to unpack .../040-libgeos3.14.1_3.14.1-2_amd64.deb ...
1232s Unpacking libgeos3.14.1:amd64 (3.14.1-2) ...
1232s Selecting previously unselected package libgeos-c1t64:amd64.
1232s Preparing to unpack .../041-libgeos-c1t64_3.14.1-2_amd64.deb ...
1232s Unpacking libgeos-c1t64:amd64 (3.14.1-2) ...
1232s Selecting previously unselected package proj-data.
1232s Preparing to unpack .../042-proj-data_9.7.1-1_all.deb ...
1232s Unpacking proj-data (9.7.1-1) ...
1232s Selecting previously unselected package libjbig0:amd64.
1232s Preparing to unpack .../043-libjbig0_2.1-6.1ubuntu3_amd64.deb ...
1232s Unpacking libjbig0:amd64 (2.1-6.1ubuntu3) ...
1232s Selecting previously unselected package liblerc4:amd64.
1232s Preparing to unpack .../044-liblerc4_4.0.0+ds-5ubuntu2_amd64.deb ...
1232s Unpacking liblerc4:amd64 (4.0.0+ds-5ubuntu2) ...
1232s Selecting previously unselected package libsharpyuv0:amd64.
1232s Preparing to unpack .../045-libsharpyuv0_1.5.0-0.1build1_amd64.deb ...
1232s Unpacking libsharpyuv0:amd64 (1.5.0-0.1build1) ...
1232s Selecting previously unselected package libwebp7:amd64.
1232s Preparing to unpack .../046-libwebp7_1.5.0-0.1build1_amd64.deb ...
1232s Unpacking libwebp7:amd64 (1.5.0-0.1build1) ...
1232s Selecting previously unselected package libtiff6:amd64.
1232s Preparing to unpack .../047-libtiff6_4.7.0-3ubuntu3_amd64.deb ...
1232s Unpacking libtiff6:amd64 (4.7.0-3ubuntu3) ...
1232s Selecting previously unselected package libproj25:amd64.
1232s Preparing to unpack .../048-libproj25_9.7.1-1_amd64.deb ...
1232s Unpacking libproj25:amd64 (9.7.1-1) ...
1232s Selecting previously unselected package libgeotiff5:amd64.
1232s Preparing to unpack .../049-libgeotiff5_1.7.4-1build1_amd64.deb ...
1232s Unpacking libgeotiff5:amd64 (1.7.4-1build1) ...
1232s Selecting previously unselected package libgif7:amd64.
1232s Preparing to unpack .../050-libgif7_5.2.2-1ubuntu3_amd64.deb ...
1232s Unpacking libgif7:amd64 (5.2.2-1ubuntu3) ...
1232s Selecting previously unselected package libsz2:amd64.
1232s Preparing to unpack .../051-libsz2_1.1.5-1_amd64.deb ...
1232s Unpacking libsz2:amd64 (1.1.5-1) ...
1232s Selecting previously unselected package libhdf4-0:amd64.
1232s Preparing to unpack .../052-libhdf4-0_4.3.1-2_amd64.deb ...
1232s Unpacking libhdf4-0:amd64 (4.3.1-2) ...
1232s Selecting previously unselected package libhdf5-310:amd64.
1232s Preparing to unpack .../053-libhdf5-310_1.14.6+repack-2_amd64.deb ...
1232s Unpacking libhdf5-310:amd64 (1.14.6+repack-2) ...
1232s Selecting previously unselected package libheif-plugin-aomdec:amd64.
1232s Preparing to unpack .../054-libheif-plugin-aomdec_1.21.2-1_amd64.deb ...
1232s Unpacking libheif-plugin-aomdec:amd64 (1.21.2-1) ...
1232s Selecting previously unselected package libheif-plugin-libde265:amd64.
1232s Preparing to unpack .../055-libheif-plugin-libde265_1.21.2-1_amd64.deb ...
1232s Unpacking libheif-plugin-libde265:amd64 (1.21.2-1) ...
1232s Selecting previously unselected package libheif1:amd64.
1232s Preparing to unpack .../056-libheif1_1.21.2-1_amd64.deb ...
1232s Unpacking libheif1:amd64 (1.21.2-1) ...
1232s Selecting previously unselected package libhwy1t64:amd64.
1232s Preparing to unpack .../057-libhwy1t64_1.3.0-2_amd64.deb ...
1232s Unpacking libhwy1t64:amd64 (1.3.0-2) ...
1232s Selecting previously unselected package liblcms2-2:amd64.
1232s Preparing to unpack .../058-liblcms2-2_2.17-1_amd64.deb ...
1232s Unpacking liblcms2-2:amd64 (2.17-1) ...
1232s Selecting previously unselected package libjxl0.11:amd64.
1232s Preparing to unpack .../059-libjxl0.11_0.11.1-6ubuntu1_amd64.deb ...
1232s Unpacking libjxl0.11:amd64 (0.11.1-6ubuntu1) ...
1232s Selecting previously unselected package liburiparser1:amd64.
1232s Preparing to unpack .../060-liburiparser1_0.9.8+dfsg-2_amd64.deb ...
1232s Unpacking liburiparser1:amd64 (0.9.8+dfsg-2) ...
1232s Selecting previously unselected package libkmlbase1t64:amd64.
1232s Preparing to unpack .../061-libkmlbase1t64_1.3.0-13_amd64.deb ...
1232s Unpacking libkmlbase1t64:amd64 (1.3.0-13) ...
1232s Selecting previously unselected package libkmldom1t64:amd64.
1232s Preparing to unpack .../062-libkmldom1t64_1.3.0-13_amd64.deb ...
1232s Unpacking libkmldom1t64:amd64 (1.3.0-13) ...
1232s Selecting previously unselected package libkmlengine1t64:amd64.
1232s Preparing to unpack .../063-libkmlengine1t64_1.3.0-13_amd64.deb ...
1232s Unpacking libkmlengine1t64:amd64 (1.3.0-13) ...
1232s Selecting previously unselected package libgomp1:amd64.
1232s Preparing to unpack .../064-libgomp1_15.2.0-12ubuntu1_amd64.deb ...
1232s Unpacking libgomp1:amd64 (15.2.0-12ubuntu1) ...
1232s Selecting previously unselected package libmuparser2v5:amd64.
1232s Preparing to unpack .../065-libmuparser2v5_2.3.4-2_amd64.deb ...
1232s Unpacking libmuparser2v5:amd64 (2.3.4-2) ...
1232s Selecting previously unselected package mysql-common.
1232s Preparing to unpack .../066-mysql-common_5.8+1.1.1ubuntu2_all.deb ...
1232s Unpacking mysql-common (5.8+1.1.1ubuntu2) ...
1232s Selecting previously unselected package libmysqlclient24:amd64.
1232s Preparing to unpack .../067-libmysqlclient24_8.4.8-0ubuntu1_amd64.deb ...
1232s Unpacking libmysqlclient24:amd64 (8.4.8-0ubuntu1) ...
1232s Selecting previously unselected package libhdf5-hl-310:amd64.
1232s Preparing to unpack .../068-libhdf5-hl-310_1.14.6+repack-2_amd64.deb ...
1232s Unpacking libhdf5-hl-310:amd64 (1.14.6+repack-2) ...
1232s Selecting previously unselected package libnetcdf22:amd64.
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1233s Selecting previously unselected package libxft2:amd64.
1233s Preparing to unpack .../111-libxft2_2.3.6-1build2_amd64.deb ...
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1233s Preparing to unpack .../117-node-bootstrap-sass_3.4.3-2_all.deb ...
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1234s Selecting previously unselected package r-cran-sp.
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1234s Selecting previously unselected package r-cran-littler.
1234s Preparing to unpack .../131-r-cran-littler_0.3.22-1_amd64.deb ...
1234s Unpacking r-cran-littler (0.3.22-1) ...
1234s Selecting previously unselected package r-cran-pkgkitten.
1234s Preparing to unpack .../132-r-cran-pkgkitten_0.2.4-1_all.deb ...
1234s Unpacking r-cran-pkgkitten (0.2.4-1) ...
1234s Selecting previously unselected package r-cran-rcpp.
1234s Preparing to unpack .../133-r-cran-rcpp_1.1.0-1_amd64.deb ...
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1234s Selecting previously unselected package r-cran-rcpparmadillo.
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1234s Unpacking r-cran-rcpparmadillo (15.2.3-1-1) ...
1234s Selecting previously unselected package r-cran-ade4.
1234s Preparing to unpack .../135-r-cran-ade4_1.7-23-1_amd64.deb ...
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1234s Selecting previously unselected package r-cran-kernsmooth.
1234s Preparing to unpack .../136-r-cran-kernsmooth_2.23-26-1build1_amd64.deb ...
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1234s Selecting previously unselected package r-cran-png.
1234s Preparing to unpack .../137-r-cran-png_0.1-8-1build2_amd64.deb ...
1234s Unpacking r-cran-png (0.1-8-1build2) ...
1234s Selecting previously unselected package r-cran-jpeg.
1234s Preparing to unpack .../138-r-cran-jpeg_0.1-10-1_amd64.deb ...
1234s Unpacking r-cran-jpeg (0.1-10-1) ...
1234s Selecting previously unselected package r-cran-rcolorbrewer.
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1234s Unpacking r-cran-rcolorbrewer (1.1-3-1build2) ...
1234s Selecting previously unselected package r-cran-deldir.
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1234s Unpacking r-cran-deldir (2.0-4-1build1) ...
1234s Selecting previously unselected package r-cran-matrix.
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1234s Selecting previously unselected package r-cran-rcppeigen.
1234s Preparing to unpack .../142-r-cran-rcppeigen_0.3.4.0.2-1_amd64.deb ...
1234s Unpacking r-cran-rcppeigen (0.3.4.0.2-1) ...
1234s Selecting previously unselected package r-cran-interp.
1234s Preparing to unpack .../143-r-cran-interp_1.1-6-1_amd64.deb ...
1234s Unpacking r-cran-interp (1.1-6-1) ...
1234s Selecting previously unselected package r-cran-latticeextra.
1234s Preparing to unpack .../144-r-cran-latticeextra_0.6-31-1_all.deb ...
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1234s Selecting previously unselected package r-cran-adegraphics.
1234s Preparing to unpack .../145-r-cran-adegraphics_1.0-22-1_all.deb ...
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1234s Selecting previously unselected package r-cran-backports.
1234s Preparing to unpack .../146-r-cran-backports_1.5.0-2_amd64.deb ...
1234s Unpacking r-cran-backports (1.5.0-2) ...
1234s Selecting previously unselected package r-cran-base64enc.
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1234s Unpacking r-cran-base64enc (0.1-3-3build1) ...
1234s Selecting previously unselected package r-cran-boot.
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1234s Unpacking r-cran-boot (1.3-32-1) ...
1234s Selecting previously unselected package r-cran-cli.
1234s Preparing to unpack .../149-r-cran-cli_3.6.4-1_amd64.deb ...
1234s Unpacking r-cran-cli (3.6.4-1) ...
1234s Selecting previously unselected package r-cran-generics.
1234s Preparing to unpack .../150-r-cran-generics_0.1.4-1_all.deb ...
1234s Unpacking r-cran-generics (0.1.4-1) ...
1235s Selecting previously unselected package r-cran-glue.
1235s Preparing to unpack .../151-r-cran-glue_1.8.0-1_amd64.deb ...
1235s Unpacking r-cran-glue (1.8.0-1) ...
1235s Selecting previously unselected package r-cran-rlang.
1235s Preparing to unpack .../152-r-cran-rlang_1.1.5-3_amd64.deb ...
1235s Unpacking r-cran-rlang (1.1.5-3) ...
1235s Selecting previously unselected package r-cran-lifecycle.
1235s Preparing to unpack .../153-r-cran-lifecycle_1.0.5+dfsg-1_all.deb ...
1235s Unpacking r-cran-lifecycle (1.0.5+dfsg-1) ...
1235s Selecting previously unselected package r-cran-magrittr.
1235s Preparing to unpack .../154-r-cran-magrittr_2.0.3-1_amd64.deb ...
1235s Unpacking r-cran-magrittr (2.0.3-1) ...
1235s Selecting previously unselected package r-cran-utf8.
1235s Preparing to unpack .../155-r-cran-utf8_1.2.4-1_amd64.deb ...
1235s Unpacking r-cran-utf8 (1.2.4-1) ...
1235s Selecting previously unselected package r-cran-vctrs.
1235s Preparing to unpack .../156-r-cran-vctrs_0.6.5-1_amd64.deb ...
1235s Unpacking r-cran-vctrs (0.6.5-1) ...
1235s Selecting previously unselected package r-cran-pillar.
1235s Preparing to unpack .../157-r-cran-pillar_1.11.1+dfsg-1_all.deb ...
1235s Unpacking r-cran-pillar (1.11.1+dfsg-1) ...
1235s Selecting previously unselected package r-cran-r6.
1235s Preparing to unpack .../158-r-cran-r6_2.6.1-1_all.deb ...
1235s Unpacking r-cran-r6 (2.6.1-1) ...
1235s Selecting previously unselected package r-cran-fansi.
1235s Preparing to unpack .../159-r-cran-fansi_1.0.6-2_amd64.deb ...
1235s Unpacking r-cran-fansi (1.0.6-2) ...
1235s Selecting previously unselected package r-cran-pkgconfig.
1235s Preparing to unpack .../160-r-cran-pkgconfig_2.0.3-2build2_all.deb ...
1235s Unpacking r-cran-pkgconfig (2.0.3-2build2) ...
1235s Selecting previously unselected package r-cran-tibble.
1235s Preparing to unpack .../161-r-cran-tibble_3.2.1+dfsg-3_amd64.deb ...
1235s Unpacking r-cran-tibble (3.2.1+dfsg-3) ...
1235s Selecting previously unselected package r-cran-withr.
1235s Preparing to unpack .../162-r-cran-withr_3.0.2+dfsg-1_all.deb ...
1235s Unpacking r-cran-withr (3.0.2+dfsg-1) ...
1235s Selecting previously unselected package r-cran-tidyselect.
1235s Preparing to unpack .../163-r-cran-tidyselect_1.2.1+dfsg-1_amd64.deb ...
1235s Unpacking r-cran-tidyselect (1.2.1+dfsg-1) ...
1235s Selecting previously unselected package r-cran-dplyr.
1235s Preparing to unpack .../164-r-cran-dplyr_1.1.4-4_amd64.deb ...
1235s Unpacking r-cran-dplyr (1.1.4-4) ...
1235s Selecting previously unselected package r-cran-purrr.
1235s Preparing to unpack .../165-r-cran-purrr_1.0.4-1_amd64.deb ...
1235s Unpacking r-cran-purrr (1.0.4-1) ...
1235s Selecting previously unselected package r-cran-stringi.
1235s Preparing to unpack .../166-r-cran-stringi_1.8.4-1build2_amd64.deb ...
1235s Unpacking r-cran-stringi (1.8.4-1build2) ...
1235s Selecting previously unselected package r-cran-stringr.
1235s Preparing to unpack .../167-r-cran-stringr_1.5.1-1_all.deb ...
1235s Unpacking r-cran-stringr (1.5.1-1) ...
1235s Selecting previously unselected package r-cran-cpp11.
1235s Preparing to unpack .../168-r-cran-cpp11_0.5.3-1_all.deb ...
1235s Unpacking r-cran-cpp11 (0.5.3-1) ...
1235s Selecting previously unselected package r-cran-tidyr.
1235s Preparing to unpack .../169-r-cran-tidyr_1.3.1-1_amd64.deb ...
1235s Unpacking r-cran-tidyr (1.3.1-1) ...
1235s Selecting previously unselected package r-cran-broom.
1235s Preparing to unpack .../170-r-cran-broom_1.0.12+dfsg-1_all.deb ...
1235s Unpacking r-cran-broom (1.0.12+dfsg-1) ...
1235s Selecting previously unselected package r-cran-fastmap.
1235s Preparing to unpack .../171-r-cran-fastmap_1.2.0-1_amd64.deb ...
1235s Unpacking r-cran-fastmap (1.2.0-1) ...
1235s Selecting previously unselected package r-cran-cachem.
1235s Preparing to unpack .../172-r-cran-cachem_1.1.0-1_amd64.deb ...
1235s Unpacking r-cran-cachem (1.1.0-1) ...
1235s Selecting previously unselected package r-cran-digest.
1235s Preparing to unpack .../173-r-cran-digest_0.6.39-1_amd64.deb ...
1235s Unpacking r-cran-digest (0.6.39-1) ...
1235s Selecting previously unselected package r-cran-htmltools.
1235s Preparing to unpack .../174-r-cran-htmltools_0.5.8.1-1_amd64.deb ...
1235s Unpacking r-cran-htmltools (0.5.8.1-1) ...
1235s Selecting previously unselected package r-cran-jquerylib.
1235s Preparing to unpack .../175-r-cran-jquerylib_0.1.4+dfsg-5_all.deb ...
1235s Unpacking r-cran-jquerylib (0.1.4+dfsg-5) ...
1235s Selecting previously unselected package r-cran-jsonlite.
1235s Preparing to unpack .../176-r-cran-jsonlite_1.9.1+dfsg-1_amd64.deb ...
1235s Unpacking r-cran-jsonlite (1.9.1+dfsg-1) ...
1235s Selecting previously unselected package r-cran-memoise.
1235s Preparing to unpack .../177-r-cran-memoise_2.0.1-1build1_all.deb ...
1235s Unpacking r-cran-memoise (2.0.1-1build1) ...
1235s Selecting previously unselected package r-cran-mime.
1235s Preparing to unpack .../178-r-cran-mime_0.12-2_amd64.deb ...
1235s Unpacking r-cran-mime (0.12-2) ...
1235s Selecting previously unselected package r-cran-fs.
1235s Preparing to unpack .../179-r-cran-fs_1.6.5+dfsg-1_amd64.deb ...
1235s Unpacking r-cran-fs (1.6.5+dfsg-1) ...
1235s Selecting previously unselected package r-cran-rappdirs.
1235s Preparing to unpack .../180-r-cran-rappdirs_0.3.3-1build1_amd64.deb ...
1235s Unpacking r-cran-rappdirs (0.3.3-1build1) ...
1235s Selecting previously unselected package r-cran-sass.
1235s Preparing to unpack .../181-r-cran-sass_0.4.9+dfsg-1_amd64.deb ...
1235s Unpacking r-cran-sass (0.4.9+dfsg-1) ...
1235s Selecting previously unselected package r-cran-bslib.
1235s Preparing to unpack .../182-r-cran-bslib_0.9.0+dfsg-3build1_all.deb ...
1235s Unpacking r-cran-bslib (0.9.0+dfsg-3build1) ...
1235s Selecting previously unselected package r-cran-cardata.
1235s Preparing to unpack .../183-r-cran-cardata_3.0.6-1_all.deb ...
1235s Unpacking r-cran-cardata (3.0.6-1) ...
1235s Selecting previously unselected package r-cran-formula.
1235s Preparing to unpack .../184-r-cran-formula_1.2-5-1_all.deb ...
1235s Unpacking r-cran-formula (1.2-5-1) ...
1235s Selecting previously unselected package r-cran-nlme.
1235s Preparing to unpack .../185-r-cran-nlme_3.1.168-1_amd64.deb ...
1235s Unpacking r-cran-nlme (3.1.168-1) ...
1235s Selecting previously unselected package r-cran-mgcv.
1235s Preparing to unpack .../186-r-cran-mgcv_1.9-4-1_amd64.deb ...
1235s Unpacking r-cran-mgcv (1.9-4-1) ...
1235s Selecting previously unselected package r-cran-nnet.
1235s Preparing to unpack .../187-r-cran-nnet_7.3-20-1_amd64.deb ...
1235s Unpacking r-cran-nnet (7.3-20-1) ...
1235s Selecting previously unselected package r-cran-minqa.
1235s Preparing to unpack .../188-r-cran-minqa_1.2.8-1_amd64.deb ...
1235s Unpacking r-cran-minqa (1.2.8-1) ...
1235s Selecting previously unselected package libnlopt0:amd64.
1235s Preparing to unpack .../189-libnlopt0_2.7.1-7ubuntu1_amd64.deb ...
1235s Unpacking libnlopt0:amd64 (2.7.1-7ubuntu1) ...
1235s Selecting previously unselected package r-cran-nloptr.
1235s Preparing to unpack .../190-r-cran-nloptr_2.2.1-2_amd64.deb ...
1235s Unpacking r-cran-nloptr (2.2.1-2) ...
1235s Selecting previously unselected package r-cran-rbibutils.
1235s Preparing to unpack .../191-r-cran-rbibutils_2.3-1_amd64.deb ...
1235s Unpacking r-cran-rbibutils (2.3-1) ...
1235s Selecting previously unselected package r-cran-rdpack.
1235s Preparing to unpack .../192-r-cran-rdpack_2.6.3-1_all.deb ...
1235s Unpacking r-cran-rdpack (2.6.3-1) ...
1235s Selecting previously unselected package r-cran-reformulas.
1235s Preparing to unpack .../193-r-cran-reformulas_0.4.4-1_all.deb ...
1235s Unpacking r-cran-reformulas (0.4.4-1) ...
1235s Selecting previously unselected package r-cran-statmod.
1235s Preparing to unpack .../194-r-cran-statmod_1.5.0-1_amd64.deb ...
1235s Unpacking r-cran-statmod (1.5.0-1) ...
1235s Selecting previously unselected package r-cran-lme4.
1235s Preparing to unpack .../195-r-cran-lme4_1.1-38-1_amd64.deb ...
1235s Unpacking r-cran-lme4 (1.1-38-1) ...
1235s Selecting previously unselected package r-cran-numderiv.
1235s Preparing to unpack .../196-r-cran-numderiv_2016.8-1.1-3build1_all.deb ...
1235s Unpacking r-cran-numderiv (2016.8-1.1-3build1) ...
1235s Selecting previously unselected package r-cran-gtable.
1235s Preparing to unpack .../197-r-cran-gtable_0.3.6+dfsg-1_all.deb ...
1235s Unpacking r-cran-gtable (0.3.6+dfsg-1) ...
1235s Selecting previously unselected package r-cran-isoband.
1235s Preparing to unpack .../198-r-cran-isoband_0.2.7-1_amd64.deb ...
1235s Unpacking r-cran-isoband (0.2.7-1) ...
1235s Selecting previously unselected package r-cran-farver.
1236s Preparing to unpack .../199-r-cran-farver_2.1.2-1_amd64.deb ...
1236s Unpacking r-cran-farver (2.1.2-1) ...
1236s Selecting previously unselected package r-cran-labeling.
1236s Preparing to unpack .../200-r-cran-labeling_0.4.3-1_all.deb ...
1236s Unpacking r-cran-labeling (0.4.3-1) ...
1236s Selecting previously unselected package r-cran-viridislite.
1236s Preparing to unpack .../201-r-cran-viridislite_0.4.3-1_all.deb ...
1236s Unpacking r-cran-viridislite (0.4.3-1) ...
1236s Selecting previously unselected package r-cran-scales.
1236s Preparing to unpack .../202-r-cran-scales_1.4.0-1_all.deb ...
1236s Unpacking r-cran-scales (1.4.0-1) ...
1236s Selecting previously unselected package r-cran-ggplot2.
1236s Preparing to unpack .../203-r-cran-ggplot2_3.5.1+dfsg-1_all.deb ...
1236s Unpacking r-cran-ggplot2 (3.5.1+dfsg-1) ...
1236s Selecting previously unselected package r-cran-cowplot.
1236s Preparing to unpack .../204-r-cran-cowplot_1.1.3+dfsg-1_all.deb ...
1236s Unpacking r-cran-cowplot (1.1.3+dfsg-1) ...
1236s Selecting previously unselected package r-cran-deriv.
1236s Preparing to unpack .../205-r-cran-deriv_4.2.0-1_all.deb ...
1236s Unpacking r-cran-deriv (4.2.0-1) ...
1236s Selecting previously unselected package r-cran-colorspace.
1236s Preparing to unpack .../206-r-cran-colorspace_2.1-1+dfsg-1_amd64.deb ...
1236s Unpacking r-cran-colorspace (2.1-1+dfsg-1) ...
1236s Selecting previously unselected package r-cran-fracdiff.
1236s Preparing to unpack .../207-r-cran-fracdiff_1.5-3-1_amd64.deb ...
1236s Unpacking r-cran-fracdiff (1.5-3-1) ...
1236s Selecting previously unselected package r-cran-zoo.
1236s Preparing to unpack .../208-r-cran-zoo_1.8-15-1_amd64.deb ...
1236s Unpacking r-cran-zoo (1.8-15-1) ...
1236s Selecting previously unselected package r-cran-lmtest.
1236s Preparing to unpack .../209-r-cran-lmtest_0.9.40-1build1_amd64.deb ...
1236s Unpacking r-cran-lmtest (0.9.40-1build1) ...
1236s Selecting previously unselected package r-cran-timedate.
1236s Preparing to unpack .../210-r-cran-timedate_4052.112-1_amd64.deb ...
1236s Unpacking r-cran-timedate (4052.112-1) ...
1236s Selecting previously unselected package r-cran-quadprog.
1236s Preparing to unpack .../211-r-cran-quadprog_1.5-8-1build2_amd64.deb ...
1236s Unpacking r-cran-quadprog (1.5-8-1build2) ...
1236s Selecting previously unselected package r-cran-xts.
1236s Preparing to unpack .../212-r-cran-xts_0.14.1-1_amd64.deb ...
1236s Unpacking r-cran-xts (0.14.1-1) ...
1236s Selecting previously unselected package r-cran-curl.
1236s Preparing to unpack .../213-r-cran-curl_7.0.0+dfsg-1_amd64.deb ...
1236s Unpacking r-cran-curl (7.0.0+dfsg-1) ...
1236s Selecting previously unselected package r-cran-ttr.
1236s Preparing to unpack .../214-r-cran-ttr_0.24.4-1_amd64.deb ...
1236s Unpacking r-cran-ttr (0.24.4-1) ...
1236s Selecting previously unselected package r-cran-quantmod.
1236s Preparing to unpack .../215-r-cran-quantmod_0.4.28-1_all.deb ...
1236s Unpacking r-cran-quantmod (0.4.28-1) ...
1236s Selecting previously unselected package r-cran-tseries.
1236s Preparing to unpack .../216-r-cran-tseries_0.10-59-3_amd64.deb ...
1236s Unpacking r-cran-tseries (0.10-59-3) ...
1236s Selecting previously unselected package r-cran-urca.
1236s Preparing to unpack .../217-r-cran-urca_1.3-4-1build1_amd64.deb ...
1236s Unpacking r-cran-urca (1.3-4-1build1) ...
1236s Selecting previously unselected package r-cran-forecast.
1236s Preparing to unpack .../218-r-cran-forecast_8.23.0-1_amd64.deb ...
1236s Unpacking r-cran-forecast (8.23.0-1) ...
1236s Selecting previously unselected package r-cran-modelr.
1236s Preparing to unpack .../219-r-cran-modelr_0.1.11-1_all.deb ...
1236s Unpacking r-cran-modelr (0.1.11-1) ...
1236s Selecting previously unselected package r-cran-microbenchmark.
1236s Preparing to unpack .../220-r-cran-microbenchmark_1.5.0-1_amd64.deb ...
1236s Unpacking r-cran-microbenchmark (1.5.0-1) ...
1236s Selecting previously unselected package r-cran-doby.
1236s Preparing to unpack .../221-r-cran-doby_4.7.1-3_all.deb ...
1236s Unpacking r-cran-doby (4.7.1-3) ...
1236s Selecting previously unselected package r-cran-evaluate.
1236s Preparing to unpack .../222-r-cran-evaluate_1.0.5-1_all.deb ...
1236s Unpacking r-cran-evaluate (1.0.5-1) ...
1236s Selecting previously unselected package r-cran-xfun.
1236s Preparing to unpack .../223-r-cran-xfun_0.55+dfsg-1_amd64.deb ...
1236s Unpacking r-cran-xfun (0.55+dfsg-1) ...
1236s Selecting previously unselected package r-cran-highr.
1236s Preparing to unpack .../224-r-cran-highr_0.11+dfsg-1_all.deb ...
1236s Unpacking r-cran-highr (0.11+dfsg-1) ...
1236s Selecting previously unselected package r-cran-yaml.
1236s Preparing to unpack .../225-r-cran-yaml_2.3.10-1_amd64.deb ...
1236s Unpacking r-cran-yaml (2.3.10-1) ...
1236s Selecting previously unselected package libjs-mathjax.
1236s Preparing to unpack .../226-libjs-mathjax_2.7.9+dfsg-1build1_all.deb ...
1236s Unpacking libjs-mathjax (2.7.9+dfsg-1build1) ...
1236s Selecting previously unselected package r-cran-knitr.
1236s Preparing to unpack .../227-r-cran-knitr_1.51+dfsg-1_all.deb ...
1236s Unpacking r-cran-knitr (1.51+dfsg-1) ...
1236s Selecting previously unselected package r-cran-pbkrtest.
1236s Preparing to unpack .../228-r-cran-pbkrtest_0.5.5-1_all.deb ...
1236s Unpacking r-cran-pbkrtest (0.5.5-1) ...
1236s Selecting previously unselected package r-cran-sparsem.
1236s Preparing to unpack .../229-r-cran-sparsem_1.84-2-1_amd64.deb ...
1236s Unpacking r-cran-sparsem (1.84-2-1) ...
1236s Selecting previously unselected package r-cran-matrixmodels.
1236s Preparing to unpack .../230-r-cran-matrixmodels_0.5-4-1_all.deb ...
1236s Unpacking r-cran-matrixmodels (0.5-4-1) ...
1236s Selecting previously unselected package r-cran-survival.
1236s Preparing to unpack .../231-r-cran-survival_3.8-6-1_amd64.deb ...
1236s Unpacking r-cran-survival (3.8-6-1) ...
1236s Selecting previously unselected package r-cran-matrixstats.
1236s Preparing to unpack .../232-r-cran-matrixstats_1.5.0-1_amd64.deb ...
1236s Unpacking r-cran-matrixstats (1.5.0-1) ...
1236s Selecting previously unselected package r-cran-class.
1236s Preparing to unpack .../233-r-cran-class_7.3-23-1_amd64.deb ...
1236s Unpacking r-cran-class (7.3-23-1) ...
1236s Selecting previously unselected package r-cran-proxy.
1236s Preparing to unpack .../234-r-cran-proxy_0.4-27-1_amd64.deb ...
1236s Unpacking r-cran-proxy (0.4-27-1) ...
1236s Selecting previously unselected package r-cran-e1071.
1236s Preparing to unpack .../235-r-cran-e1071_1.7-17-1_amd64.deb ...
1236s Unpacking r-cran-e1071 (1.7-17-1) ...
1236s Selecting previously unselected package r-cran-codetools.
1236s Preparing to unpack .../236-r-cran-codetools_0.2-20-1build1_all.deb ...
1236s Unpacking r-cran-codetools (0.2-20-1build1) ...
1237s Selecting previously unselected package r-cran-iterators.
1237s Preparing to unpack .../237-r-cran-iterators_1.0.14-1build1_all.deb ...
1237s Unpacking r-cran-iterators (1.0.14-1build1) ...
1237s Selecting previously unselected package r-cran-foreach.
1237s Preparing to unpack .../238-r-cran-foreach_1.5.2-1build1_all.deb ...
1237s Unpacking r-cran-foreach (1.5.2-1build1) ...
1237s Selecting previously unselected package r-cran-data.table.
1237s Preparing to unpack .../239-r-cran-data.table_1.17.0+dfsg-1_amd64.deb ...
1237s Unpacking r-cran-data.table (1.17.0+dfsg-1) ...
1237s Selecting previously unselected package r-cran-modelmetrics.
1237s Preparing to unpack .../240-r-cran-modelmetrics_1.2.2.2-1build2_amd64.deb ...
1237s Unpacking r-cran-modelmetrics (1.2.2.2-1build2) ...
1237s Selecting previously unselected package r-cran-plyr.
1237s Preparing to unpack .../241-r-cran-plyr_1.8.9-1_amd64.deb ...
1237s Unpacking r-cran-plyr (1.8.9-1) ...
1237s Selecting previously unselected package r-cran-proc.
1237s Preparing to unpack .../242-r-cran-proc_1.18.5-1_amd64.deb ...
1237s Unpacking r-cran-proc (1.18.5-1) ...
1237s Selecting previously unselected package r-cran-tzdb.
1237s Preparing to unpack .../243-r-cran-tzdb_0.5.0-1_amd64.deb ...
1237s Unpacking r-cran-tzdb (0.5.0-1) ...
1237s Selecting previously unselected package r-cran-clock.
1237s Preparing to unpack .../244-r-cran-clock_0.7.2-1_amd64.deb ...
1237s Unpacking r-cran-clock (0.7.2-1) ...
1237s Selecting previously unselected package r-cran-gower.
1237s Preparing to unpack .../245-r-cran-gower_1.0.2-1_amd64.deb ...
1237s Unpacking r-cran-gower (1.0.2-1) ...
1237s Selecting previously unselected package r-cran-sparsevctrs.
1237s Preparing to unpack .../246-r-cran-sparsevctrs_0.2.0-2_amd64.deb ...
1237s Unpacking r-cran-sparsevctrs (0.2.0-2) ...
1237s Selecting previously unselected package r-cran-hardhat.
1237s Preparing to unpack .../247-r-cran-hardhat_1.4.2+dfsg-1_all.deb ...
1237s Unpacking r-cran-hardhat (1.4.2+dfsg-1) ...
1237s Selecting previously unselected package r-cran-rpart.
1237s Preparing to unpack .../248-r-cran-rpart_4.1.24-1build1_amd64.deb ...
1237s Unpacking r-cran-rpart (4.1.24-1build1) ...
1237s Selecting previously unselected package r-cran-shape.
1237s Preparing to unpack .../249-r-cran-shape_1.4.6.1-1_all.deb ...
1237s Unpacking r-cran-shape (1.4.6.1-1) ...
1237s Selecting previously unselected package r-cran-diagram.
1237s Preparing to unpack .../250-r-cran-diagram_1.6.5-2_all.deb ...
1237s Unpacking r-cran-diagram (1.6.5-2) ...
1237s Selecting previously unselected package r-cran-globals.
1237s Preparing to unpack .../251-r-cran-globals_0.19.0-1_all.deb ...
1237s Unpacking r-cran-globals (0.19.0-1) ...
1237s Selecting previously unselected package r-cran-listenv.
1237s Preparing to unpack .../252-r-cran-listenv_0.10.0+dfsg-1_all.deb ...
1237s Unpacking r-cran-listenv (0.10.0+dfsg-1) ...
1237s Selecting previously unselected package r-cran-parallelly.
1237s Preparing to unpack .../253-r-cran-parallelly_1.42.0-1_amd64.deb ...
1237s Unpacking r-cran-parallelly (1.42.0-1) ...
1237s Selecting previously unselected package r-cran-future.
1237s Preparing to unpack .../254-r-cran-future_1.34.0+dfsg-1_all.deb ...
1237s Unpacking r-cran-future (1.34.0+dfsg-1) ...
1237s Selecting previously unselected package r-cran-future.apply.
1237s Preparing to unpack .../255-r-cran-future.apply_1.11.3+dfsg-1_all.deb ...
1237s Unpacking r-cran-future.apply (1.11.3+dfsg-1) ...
1237s Selecting previously unselected package r-cran-progressr.
1237s Preparing to unpack .../256-r-cran-progressr_0.15.1-1_all.deb ...
1237s Unpacking r-cran-progressr (0.15.1-1) ...
1237s Selecting previously unselected package r-cran-squarem.
1237s Preparing to unpack .../257-r-cran-squarem_2021.1-1build1_all.deb ...
1237s Unpacking r-cran-squarem (2021.1-1build1) ...
1237s Selecting previously unselected package r-cran-lava.
1237s Preparing to unpack .../258-r-cran-lava_1.8.2+dfsg-1_all.deb ...
1237s Unpacking r-cran-lava (1.8.2+dfsg-1) ...
1237s Selecting previously unselected package r-cran-prodlim.
1237s Preparing to unpack .../259-r-cran-prodlim_2024.06.25-1_amd64.deb ...
1237s Unpacking r-cran-prodlim (2024.06.25-1) ...
1237s Selecting previously unselected package r-cran-ipred.
1237s Preparing to unpack .../260-r-cran-ipred_0.9-15-1_amd64.deb ...
1237s Unpacking r-cran-ipred (0.9-15-1) ...
1237s Selecting previously unselected package r-cran-timechange.
1237s Preparing to unpack .../261-r-cran-timechange_0.3.0-2_amd64.deb ...
1237s Unpacking r-cran-timechange (0.3.0-2) ...
1237s Selecting previously unselected package r-cran-lubridate.
1237s Preparing to unpack .../262-r-cran-lubridate_1.9.4+dfsg-1_amd64.deb ...
1237s Unpacking r-cran-lubridate (1.9.4+dfsg-1) ...
1237s Selecting previously unselected package r-cran-recipes.
1237s Preparing to unpack .../263-r-cran-recipes_1.1.0+dfsg-1_all.deb ...
1237s Unpacking r-cran-recipes (1.1.0+dfsg-1) ...
1237s Selecting previously unselected package r-cran-reshape2.
1237s Preparing to unpack .../264-r-cran-reshape2_1.4.4-2build2_amd64.deb ...
1237s Unpacking r-cran-reshape2 (1.4.4-2build2) ...
1237s Selecting previously unselected package r-cran-caret.
1237s Preparing to unpack .../265-r-cran-caret_7.0-1+dfsg-1_amd64.deb ...
1237s Unpacking r-cran-caret (7.0-1+dfsg-1) ...
1237s Selecting previously unselected package r-cran-conquer.
1237s Preparing to unpack .../266-r-cran-conquer_1.3.3-1_amd64.deb ...
1237s Unpacking r-cran-conquer (1.3.3-1) ...
1237s Selecting previously unselected package r-cran-quantreg.
1237s Preparing to unpack .../267-r-cran-quantreg_6.1-1_amd64.deb ...
1237s Unpacking r-cran-quantreg (6.1-1) ...
1237s Selecting previously unselected package r-cran-car.
1237s Preparing to unpack .../268-r-cran-car_3.1-5-1_all.deb ...
1237s Unpacking r-cran-car (3.1-5-1) ...
1237s Selecting previously unselected package r-cran-classint.
1237s Preparing to unpack .../269-r-cran-classint_0.4-11+dfsg-1_amd64.deb ...
1237s Unpacking r-cran-classint (0.4-11+dfsg-1) ...
1237s Selecting previously unselected package r-cran-commonmark.
1237s Preparing to unpack .../270-r-cran-commonmark_1.9.5-1_amd64.deb ...
1237s Unpacking r-cran-commonmark (1.9.5-1) ...
1237s Selecting previously unselected package r-cran-crayon.
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1240s Setting up r-cran-tibble (3.2.1+dfsg-3) ...
1240s Setting up r-cran-clock (0.7.2-1) ...
1240s Setting up r-cran-proc (1.18.5-1) ...
1240s Setting up r-cran-fontawesome (0.5.3-1) ...
1240s Setting up r-cran-survival (3.8-6-1) ...
1240s Setting up r-cran-xts (0.14.1-1) ...
1240s Setting up r-cran-rdpack (2.6.3-1) ...
1240s Setting up r-cran-ade4 (1.7-23-1) ...
1240s Setting up r-cran-future (1.34.0+dfsg-1) ...
1240s Setting up r-cran-jquerylib (0.1.4+dfsg-5) ...
1240s Setting up r-cran-tidyselect (1.2.1+dfsg-1) ...
1240s Setting up r-cran-reshape2 (1.4.4-2build2) ...
1240s Setting up r-cran-interp (1.1-6-1) ...
1240s Setting up r-cran-future.apply (1.11.3+dfsg-1) ...
1240s Setting up r-cran-timechange (0.3.0-2) ...
1240s Setting up r-cran-memoise (2.0.1-1build1) ...
1240s Setting up r-cran-lava (1.8.2+dfsg-1) ...
1240s Setting up r-cran-promises (1.3.2+dfsg-1) ...
1240s Setting up r-cran-purrr (1.0.4-1) ...
1240s Setting up r-cran-e1071 (1.7-17-1) ...
1240s Setting up r-cran-hardhat (1.4.2+dfsg-1) ...
1240s Setting up r-cran-dplyr (1.1.4-4) ...
1240s Setting up r-cran-reformulas (0.4.4-1) ...
1240s Setting up r-cran-ttr (0.24.4-1) ...
1240s Setting up r-cran-lubridate (1.9.4+dfsg-1) ...
1240s Setting up r-cran-prodlim (2024.06.25-1) ...
1240s Setting up r-cran-ggplot2 (3.5.1+dfsg-1) ...
1240s Setting up r-cran-httpuv (1.6.15+dfsg-1) ...
1240s Setting up r-cran-rpart (4.1.24-1build1) ...
1240s Setting up r-cran-latticeextra (0.6-31-1) ...
1240s Setting up r-cran-ipred (0.9-15-1) ...
1240s Setting up r-cran-lme4 (1.1-38-1) ...
1240s Setting up r-cran-classint (0.4-11+dfsg-1) ...
1240s Setting up r-cran-bslib (0.9.0+dfsg-3build1) ...
1240s Setting up r-cran-tidyr (1.3.1-1) ...
1240s Setting up r-cran-recipes (1.1.0+dfsg-1) ...
1240s Setting up r-cran-quantmod (0.4.28-1) ...
1240s Setting up r-cran-cowplot (1.1.3+dfsg-1) ...
1240s Setting up r-cran-adegraphics (1.0-22-1) ...
1240s Setting up r-cran-caret (7.0-1+dfsg-1) ...
1240s Setting up r-cran-shiny (1.10.0+dfsg-2) ...
1240s Setting up r-cran-tseries (0.10-59-3) ...
1240s Setting up r-cran-broom (1.0.12+dfsg-1) ...
1240s Setting up r-cran-rmarkdown (2.30+dfsg-1) ...
1240s Setting up r-cran-conquer (1.3.3-1) ...
1240s Setting up r-cran-forecast (8.23.0-1) ...
1240s Setting up r-cran-quantreg (6.1-1) ...
1240s Setting up r-cran-modelr (0.1.11-1) ...
1240s Setting up r-cran-doby (4.7.1-3) ...
1240s Setting up r-cran-pbkrtest (0.5.5-1) ...
1240s Setting up r-cran-car (3.1-5-1) ...
1240s Setting up libheif1:amd64 (1.21.2-1) ...
1240s Setting up libheif-plugin-aomdec:amd64 (1.21.2-1) ...
1240s Setting up libheif-plugin-libde265:amd64 (1.21.2-1) ...
1240s Setting up libgdal38:amd64 (3.12.1+dfsg-1) ...
1240s Setting up r-cran-sf (1.0-19+dfsg-2build2) ...
1240s Setting up r-cran-spdep (1.3-5+dfsg-1) ...
1240s Processing triggers for install-info (7.2-5) ...
1241s Processing triggers for libc-bin (2.42-2ubuntu4) ...
1241s Processing triggers for man-db (2.13.1-1build1) ...
1242s autopkgtest [23:45:00]: test environment configured for cross building
1242s autopkgtest [23:45:00]: test run-unit-test: [-----------------------
1242s 
1242s R version 4.5.2 (2025-10-31) -- "[Not] Part in a Rumble"
1242s Copyright (C) 2025 The R Foundation for Statistical Computing
1242s Platform: x86_64-pc-linux-gnu
1242s 
1242s R is free software and comes with ABSOLUTELY NO WARRANTY.
1242s You are welcome to redistribute it under certain conditions.
1242s Type 'license()' or 'licence()' for distribution details.
1242s 
1242s R is a collaborative project with many contributors.
1242s Type 'contributors()' for more information and
1242s 'citation()' on how to cite R or R packages in publications.
1242s 
1242s Type 'demo()' for some demos, 'help()' for on-line help, or
1242s 'help.start()' for an HTML browser interface to help.
1242s Type 'q()' to quit R.
1242s 
1242s > library(adegraphics)
1243s Registered S3 methods overwritten by 'adegraphics':
1243s   method         from
1243s   biplot.dudi    ade4
1243s   kplot.foucart  ade4
1243s   kplot.mcoa     ade4
1243s   kplot.mfa      ade4
1243s   kplot.pta      ade4
1243s   kplot.sepan    ade4
1243s   kplot.statis   ade4
1243s   scatter.coa    ade4
1243s   scatter.dudi   ade4
1243s   scatter.nipals ade4
1243s   scatter.pco    ade4
1243s   score.acm      ade4
1243s   score.mix      ade4
1243s   score.pca      ade4
1243s   screeplot.dudi ade4
1243s > pdf("add.pdf")
1243s > set.seed(40)
1243s > 
1243s > ########################### add.ADEg ##############################
1243s > 
1243s > data(granulo, package = "ade4")
1243s > df <- data.frame(t(apply(granulo$tab, 1, function(x) x / sum(x))))
1243s > pca <- ade4::dudi.pca(df, scal = FALSE, scan = FALSE)
1243s > 
1243s > g1 <- s.arrow(ade4::dudi.pca(data.frame(df), scan = F, nf = 2)$co)
1243s > g2 <- s.label(pca$li, plabels.cex = 0.5, plabels.col = "blue", plot = F)
1243s > g3 <- add.ADEg(g2)
1243s > g4 <- s.label(pca$c1, plabels.col = "red", add = T)
1243s > 
1243s > g5 <- s.arrow(pca$c1, plabels.cex = 1.5, plot = FALSE)
1243s > g6 <- ADEgS(list(g1 = g1, g5 = g5), layout = c(1, 2))
1243s > update(g6, pback.col = "lightblue", g1.plabels.cex = 2, g5.plabels.col = "red")
1243s > 
1243s > 
1243s > ############################## addhist ##############################
1243s > dfxy1 <- matrix(rnorm(200), ncol = 2)
1243s > gh1 <- s.label(dfxy1)
1243s > gh2 <- addhist(gh1)
1243s > 
1243s > dfxy2 <- dfxy1
1243s > dfxy2[, 2] <- dfxy2[, 2] + rnorm(100, 2)
1243s > gh3 <- s.label(dfxy2)
1243s > gh4 <- addhist(gh3, plot.polygon = list(col = "red"))
1243s > 
1243s > data(rpjdl, package = "ade4")
1243s > coa1 <- ade4::dudi.coa(rpjdl$fau, scannf = FALSE, nf = 4)
1243s > gh5 <- s.label(coa1$li)
1243s > gh6 <- addhist(gh5)
1243s > 
1243s > 
1243s > ############################## addtext ##############################
1243s > # on a ADEg
1243s > addtext(g1, -1, 1, "Data Granulo", plabels.cex = 1.5, plabels.col = "red")
1244s > addtext(g1, -1, 1, c("Data", "Granulo"), plabels.cex = 1.5, plabels.col = c("red", "blue")) # the two labels are superposed
1244s > addtext(g1, -1, 1, c("Data", "Granulo"), plabels.cex = 1.5, plabels.col = "red") # the two labels are superposed
1244s > 
1244s > addtext(g1, c(-1, -0.5), 1, "Data Granulo", plabels.cex = 1.5, plabels.col = c("red", "blue"))
1244s > addtext(g1, c(-1, -0.5), 1, c("Data", "Granulo"), plabels.cex = 1.5, plabels.col = c("red", "blue"))
1244s > 
1244s > addtext(g1, -1, c(1, 0.9), c("Data", "Granulo"), plabels.cex = 1.5, plabels.col = "red")
1244s > addtext(g1, -1, c(1, 0.9), c("Data", "Granulo"), plabels.cex = c(1.5, 2), plabels.col = "red")
1244s > 
1244s > data(dunedata, package = "ade4")
1244s > afc1 <- ade4::dudi.coa(dunedata$veg, scannf = FALSE)
1244s > g7 <- table.value(dunedata$veg, symbol = "circle", ppoints.cex = 0.5, plot = FALSE)
1244s > addtext(g7, 1, 20, "A", plabels.srt = 45, plabels.boxes.draw = FALSE)
1244s > 
1244s > # on a ADEgS: juxtaposition
1244s > addtext(g6, 0.5, 0.5, "Text added", plabels.col = "blue", which = 1)
1244s > addtext(g6, 0.5, 0.5, "Text added", plabels.col = c("blue", "green"), which = 2)
1244s > addtext(g6, 0.5, 0.5, "Text added", plabels.col = c("green4", "blue"), which = 2)
1244s > addtext(g6, 0.5, 0.5, "Text added", plabels.col = "blue", which = 1:2)
1244s > addtext(g6, 0.5, 0.5, "Text added", plabels.col = c("green4", "blue"))
1244s > addtext(g6, c(0.7, -0.5), c(0.2, -0.4), "Text added", plabels.col = "blue", plabels.cex = 1.2, which = 1:2)
1244s > addtext(g6, c(0.7, -0.5), c(0.2, -0.4), "Text added", plabels.cex = c(0.5, 1.5), plabels.col = c("blue", "green4"))
1244s > 
1244s > xy2 <- cbind.data.frame(x = runif(200, -1, 1), y = runif(200, -2, 2), y2 = runif(200, -0.5, 0.5))
1244s > fac2 <- factor(xy2$x > 0) 
1244s > g9 <- s.class(xy2, fac = fac2, xax = 1, yax = 2:3, plot = FALSE)
1244s > addtext(g9, 0, 0, "A", plabels.col = "red", plabels.cex = 2)
1244s > addtext(g9, c(-2.1, -1.07), c(2, 1), c("A", "B"), plabels.col ="red", plabels.cex = 2, which = 1:2)
1244s > addtext(g9, c(-2.1, -1.07), c(2, 1), c("A", "B"), plabels.col = c("green4", "red"), plabels.cex = c(3, 2), which = 1:2)
1244s > 
1244s > # on a ADEgS: facets
1244s > xy <- cbind.data.frame(x = runif(200, -1, 1), y = runif(200, -1, 1))
1244s > posi <- factor(xy$x > 0) : factor(xy$y > 0)
1244s > g10 <- s.class(xy, fac = posi, facets = posi, pellipses.col = 1:4, plabels.cex = 0, plegend.drawKey = FALSE, psub.cex = 0, plot = FALSE)
1244s > addtext(g10, c(0.5, 0.5, -0.5, -0.5), c(0.5, -0.5), levels(posi), plabels.cex = 2, plabels.col = 1:4)
1245s > 
1245s > 
1245s > ############################## addline ##############################
1245s > # on a 2D plot
1245s > g11 <- s.label(cbind(rnorm(100), rnorm(100)), plot = FALSE)
1245s > addline(g11, 0, 1, plines = list(col = "red", lwd = 2, lty = 2))
1245s > addline(g11, h = 1, plines.col = "chartreuse4", plines.lwd = 3)
1245s > addline(g11, v = c(-1, 1), plines.col = "cadetblue", plines.lwd = 3)
1245s > 
1245s > # on a 1D plot
1245s > g12 <- s1d.label(rnorm(10), plot = FALSE)
1245s > addline(g12, v = 1, plines.col = "chartreuse4", plines.lwd = 3)
1245s > 
1245s > # on a ADEgS: juxtaposition
1245s > g13 <- ADEgS(c(g11, g11), plot = FALSE)
1245s > addline(g13, 0, 1, which = 1, plines.col = "red")
1245s > addline(g13, 0, 1, which = 2, plines.col = "red")
1245s > addline(g13, 0, 1, which = 1:2, plines.col = "red")
1245s > addline(g13, 0, 1, plines.col = "red")
1245s > addline(g13, h = 1, plines.col = "red")
1245s > addline(g13, h = c(1, -1), plines.col = "red")
1245s > addline(g13, v = c(-1, 1), plines.col = "red")
1245s > addline(g13, v = c(-1, 1), plines.col = 2:3)
1245s > addline(g13, c(0.7, -0.5), c(0.2, -0.4), which = 1:2, plines.col = "red")
1245s > addline(g13, c(0.7, -0.5), c(0.2, -0.4), which = 1, plines.col = "red")
1245s > addline(g13, 0.7, 0.2, which = 1, plines.col = "red")
1245s > addline(g13, 0.7, -0.5, which = 1, plines.col = "red")
1245s > 
1245s > xy2 <- cbind.data.frame(x = runif(200, -1, 1), y = runif(200, -2, 2), y2 = runif(200, -0.5, 0.5))
1245s > fac2 <- factor(xy2$x > 0) 
1245s > g9 <- s.class(xy2, fac = fac2, xax = 1, yax = 2:3, plot = FALSE)
1245s > addline(g9, 1, 0, "A", plines.col = "red", plabels.cex = 2)
1245s Warning messages:
1245s 1: In panel.abline(a = a, b = b, h = h, v = v, lwd = params$lwd, lty = params$lty,  :
1245s   NAs introduced by coercion
1245s 2: In panel.abline(a = a, b = b, h = h, v = v, lwd = params$lwd, lty = params$lty,  :
1245s   NAs introduced by coercion
1245s > addline(g9, c(-2.1, -1.07), c(2, 1), plines.col ="red", which = 1:2)
1245s > addline(g9, c(-2.1, -1.07), c(2, 1), plines.col = c("green4", "red"))
1245s > 
1245s > # on a ADEgS: facets
1245s > xy <- cbind.data.frame(x = runif(200, -1, 1), y = runif(200, -1, 1))
1245s > posi <- factor(xy$x > 0) : factor(xy$y > 0)
1245s > g10 <- s.class(xy, fac = posi, facets = posi, pellipses.col = 1:4, plabels.cex = 0, plegend.drawKey = FALSE, psub.cex = 0, plot = FALSE)
1246s > addline(g10, 0, c(0.5, -0.5), plines.col = 1:4)
1246s > 
1246s > 
1246s > ############################## addpoint ##############################
1246s > # on a 2D plot
1246s > g11 <- s.label(cbind(rnorm(100), rnorm(100)), ylab = "y axis label", 
1246s +                paxes.draw = TRUE, plot = FALSE)
1246s > addpoint(g11, 2, 2, ppoints.col = "coral", ppoints.pch = "*", ppoints.cex = 4)
1246s > addpoint(g11, c(1, 2), c(1, 2), ppoints.col = "brown2")
1246s > addpoint(g11, 1, c(1, 2), ppoints.col = "cyan3")
1246s > 
1246s > # on a 1D plot
1246s > g12 <- s1d.density(rnorm(1000), paxes.draw = TRUE, plot = FALSE)
1246s > addpoint(g12, 2, 0, ppoints.col = "brown4", ppoints.cex = 3)
1246s > 
1246s > g12 <- s1d.density(rnorm(1000), plot = FALSE, ylab = "y axis label")
1246s > addpoint(g12, 2, 0, ppoints.col = "brown4", ppoints.cex = 3)
1246s > 
1246s > # on a ADEgS: juxtaposition
1246s > g13 <- ADEgS(c(g11, g11), plot = FALSE)
1246s > addpoint(g13, 2, 2, which = 1, ppoints.col = "cyan3")
1246s > addpoint(g13, 2, 2, which = 2, ppoints.col = "cyan3")
1246s > addpoint(g13, 2, 2, which = 1:2, ppoints.col = "cyan3")
1246s > addpoint(g13, 2, 2, ppoints.col = "cyan3")
1246s > addpoint(g13, c(1, 2), 2, ppoints.col = "cyan3")
1246s > addpoint(g13, 2, c(1, 2), ppoints.col = "cyan3")
1246s > 
1246s > xy2 <- cbind.data.frame(x = runif(200, -1, 1), y = runif(200, -2, 2), y2 = runif(200, -0.5, 0.5))
1246s > fac2 <- factor(xy2$x > 0) 
1246s > g9 <- s.class(xy2, fac = fac2, xax = 1, yax = 2:3, plot = FALSE)
1246s > addpoint(g9, 1, 0, ppoints.col = "red", ppoints.cex = 2)
1246s > addpoint(g9, c(1, -1), 0, ppoints.col = "red", ppoints.cex = 2)
1246s > addpoint(g9, 0, c(1, -1), ppoints.col = "red", ppoints.cex = 2)
1246s > 
1246s > # on a ADEgS: facets
1246s > xy <- cbind.data.frame(x = runif(200, -1, 1), y = runif(200, -1, 1))
1246s > posi <- factor(xy$x > 0) : factor(xy$y > 0)
1246s > g10 <- s.class(xy, fac = posi, facets = posi, pellipses.col = 1:4, plabels.cex = 0, plegend.drawKey = FALSE, psub.cex = 0, plot = FALSE)
1247s > addpoint(g10, 0, c(0.5, -0.5), ppoints.col = 1:4, ppoints.cex = 3)
1247s > 
1247s > 
1247s > ############################## addsegment ##############################
1247s > # on a 2D plot
1247s > g11 <- s.label(cbind(rnorm(100), rnorm(100)), paxes.draw = TRUE, plot = FALSE)
1247s > addsegment(g11, 0, 2, 0, -2, plines = list(col = "brown2", lwd = 3, lty = 2))
1247s > addsegment(g11, c(0, 1), 2, 0, -2, plines = list(col = "brown2", lwd = 3, lty = 2))
1247s > addsegment(g11, c(0, 1), 2, c(0, 1), -2, plines = list(col = c("cyan3", "brown2"), lwd = 3, lty = 2))
1247s > addsegment(g11, -2, -2, 2, 2, plines = list(col = "brown2", lwd = 3, lty = 2))
1247s > addsegment(g11, -2, 2, 2, -2, plines = list(col = "cyan3", lwd = 3, lty = 2))
1247s > 
1247s > g12 <- s.label(cbind(rnorm(100), rnorm(100)), ylab = "y axis label", plot = FALSE)
1247s > addsegment(g12, 0, 2, 0, -2, plines = list(col = "brown2", lwd = 3, lty = 2))
1247s > addsegment(g12, -2, -2, 2, 2, plines = list(col = "brown2", lwd = 3, lty = 2))
1247s > addsegment(g12, -2, 2, 2, -2, plines = list(col = "cyan3", lwd = 3, lty = 2))
1247s > 
1247s > # on a 1D plot
1247s > g13 <- s1d.density(rnorm(1000), paxes.draw = TRUE, ylab = "ylab", plot = FALSE)
1247s > addsegment(g13, 2, 0, 2, 0.2, plines.col = 1, plines.lwd = 3)
1247s > 
1247s > # on a ADEgS: juxtaposition
1247s > g14 <- ADEgS(c(g11, g11), plot = FALSE)
1247s > addsegment(g14, 1, 2, 1, -2, which = 1, plines.col = "brown2")
1247s > addsegment(g14, 1, 2, 1, -2, which = 2, plines.col = "brown2")
1247s > addsegment(g14, c(0, 1), 2, c(0, 1), -2, which = 1:2, plines.col = "brown2")
1247s > addsegment(g14, 1, 2, c(0, 1), -2, which = 1:2, plines.col = "brown2")
1247s > addsegment(g14, 1, 2, 1, -2, plines.col = "brown2")
1247s > 
1247s > xy2 <- cbind.data.frame(x = runif(200, -1, 1), y = runif(200, -2, 2), y2 = runif(200, -0.5, 0.5))
1247s > fac2 <- factor(xy2$x > 0) 
1247s > g9 <- s.class(xy2, fac = fac2, xax = 1, yax = 2:3, plot = FALSE)
1247s > addsegment(g9, 1, 0, 1, 0.5, plines.col = "red", plines.lwd = 2)
1247s > addsegment(g9, 1, -1, 0, 1, plines.col = "red", plines.lwd = 2)
1247s > addsegment(g9, 0, 1, -1, 1, plines.col = "red", plines.lwd = 2)
1247s > 
1247s > # on a ADEgS: facets
1247s > xy <- cbind.data.frame(x = runif(200, -1, 1), y = runif(200, -1, 1))
1247s > posi <- factor(xy$x > 0) : factor(xy$y > 0)
1247s > g10 <- s.class(xy, fac = posi, facets = posi, pellipses.col = 1:4, plabels.cex = 0, plegend.drawKey = FALSE, psub.cex = 0, plot = FALSE)
1248s > addsegment(g10, c(-0.5, 0.5), c(0.5, -0.5), c(-0.5, 0.5), 1, plines.col = 1:4, plines.lwd = 3)
1248s > 
1248s 
1248s R version 4.5.2 (2025-10-31) -- "[Not] Part in a Rumble"
1248s Copyright (C) 2025 The R Foundation for Statistical Computing
1248s Platform: x86_64-pc-linux-gnu
1248s 
1248s R is free software and comes with ABSOLUTELY NO WARRANTY.
1248s You are welcome to redistribute it under certain conditions.
1248s Type 'license()' or 'licence()' for distribution details.
1248s 
1248s R is a collaborative project with many contributors.
1248s Type 'contributors()' for more information and
1248s 'citation()' on how to cite R or R packages in publications.
1248s 
1248s Type 'demo()' for some demos, 'help()' for on-line help, or
1248s 'help.start()' for an HTML browser interface to help.
1248s Type 'q()' to quit R.
1248s 
1248s > ## delete/remove this file when 'scatter' functions will be removed in ade4
1248s > 
1248s > library(adegraphics)
1248s Registered S3 methods overwritten by 'adegraphics':
1248s   method         from
1248s   biplot.dudi    ade4
1248s   kplot.foucart  ade4
1248s   kplot.mcoa     ade4
1248s   kplot.mfa      ade4
1248s   kplot.pta      ade4
1248s   kplot.sepan    ade4
1248s   kplot.statis   ade4
1248s   scatter.coa    ade4
1248s   scatter.dudi   ade4
1248s   scatter.nipals ade4
1248s   scatter.pco    ade4
1248s   score.acm      ade4
1248s   score.mix      ade4
1248s   score.pca      ade4
1248s   screeplot.dudi ade4
1248s > pdf("ade4-functions.pdf")
1248s > 
1248s > ##################### scatter.dudi
1248s > data(deug, package = "ade4")
1248s > dd1 <- ade4::dudi.pca(deug$tab, scannf = FALSE, nf = 4)
1248s > scatter(dd1, posieig = "bottomright")
1248s > scatter(dd1, posieig = "bottomright", plot = T, prop = TRUE)
1248s > scatter(dd1, posieig = "none", plot = T)
1249s > scatter(dd1, posieig = "bottomleft", plot = T)
1249s > scatter(dd1, posieig = "topright", plot = T)
1249s > scatter(dd1, posieig = "topleft", plot = T, eig.col = c("white", "blue", "red"))
1249s > 
1249s > data(rhone, package = "ade4")
1249s > dd1 <- ade4::dudi.pca(rhone$tab, nf = 4, scannf = FALSE)
1249s > g1 <- scatter(dd1, sub = "Principal component analysis", row = list(plabels.optim = TRUE), col.pla.boxes.alpha = 0.5)
1249s > g1[2, drop = TRUE]
1249s > scatter(dd1, row = list(sub = "Principal component analysis", plabels.optim = TRUE), col.pla.boxes.alpha = 0.5)
1249s > scatter(dd1, prop = TRUE, ppoints.cex = 0.2, density.plot = TRUE, row = list(threshold = 0.01))
1250s > 
1250s > scatter(dd1, posieig = "none")
1250s > scatter(dd1, posieig = "bottomright")
1250s > scatter(dd1, posieig = c(0.5, 0.5))
1250s > scatter(dd1, posieig = c(0.5, 0.5, 1, 1))
1250s > 
1250s > 
1250s > ##################### scatter.coa
1250s > data(housetasks, package = "ade4")
1250s > par(mfrow = c(2, 2))
1250s > dd2 <- ade4::dudi.coa(housetasks, scan = FALSE)
1250s > ade4::scatter(dd2, method = 1, sub = "1 / Standard", posieig = "none")
1250s > ade4::scatter(dd2, method = 2, sub = "2 / Columns -> averaging -> Rows", posieig = "none")
1250s > ade4::scatter(dd2, method = 3, sub = "3 / Rows -> averaging -> Columns ", posieig = "none")
1250s > par(mfrow = c(1, 1))
1250s > 
1250s > g1 <- scatter(dd2, method = 1, row.sub = "1 / Standard", posieig = "none", plot = FALSE)
1250s > g2 <- scatter(dd2, method = 2, col.sub = "2 / Columns -> averaging -> Rows", posieig = "none", plot = FALSE)
1250s > g3 <- scatter(dd2, method = 3, row.sub = "3 / Rows -> averaging -> Columns ", posieig = "none", plot = FALSE)
1250s > G <- ADEgS(list(g1, g2, g3), layout = c(2, 2), plot = TRUE)
1250s > 
1250s > scatter(dd2, posieig = "none")
1251s > scatter(dd2, posieig = "bottomright")
1251s > scatter(dd2, posieig = c(0.5, 0.5))
1251s > scatter(dd2, posieig = c(0.5, 0.5, 1, 1))
1251s > 
1251s > 
1251s > ##################### scatter.pco
1251s > data(yanomama, package = "ade4")
1251s > gen <- ade4::quasieuclid(as.dist(yanomama$gen))
1251s > gen1 <- ade4::dudi.pco(gen, scann = FALSE, nf = 3)
1251s > scatter(gen1, posieig = "none")
1251s > scatter(gen1, posieig = "bottomri")
1251s > scatter(gen1, posieig = c(0.5, 0.5))
1251s > scatter(gen1, posieig = c(0.5, 0.5, 1, 1))
1251s > 
1251s > 
1251s > ##################### scatter.nipals
1251s > data(doubs, package = "ade4")
1251s > acp1 <- ade4::dudi.pca(doubs$env, scannf = FALSE, nf = 2)
1251s > nip1 <- ade4::nipals(doubs$env)
1252s > scatter(nip1, posieig = "none")
1252s > scatter(nip1, posieig = "bottomri")
1252s > scatter(nip1, posieig = c(0.5, 0.5))
1252s > scatter(nip1, posieig = c(0.5, 0.5, 1, 1))
1252s > 
1252s > 
1252s > ##################### score.inertia - plot.inertia
1252s > data(housetasks, package = "ade4")
1252s > coa2 <- ade4::dudi.coa(housetasks, scann = FALSE)
1252s > res21 <- ade4::inertia(coa2, row = TRUE, col = FALSE)
1252s > plot(res21, posieig = "none")
1252s > plot(res21, posieig = "bottomri")
1252s > plot(res21, posieig = c(0.5,0.5))
1252s > plot(res21, posieig = c(0.5, 0.5, 1, 1))
1252s > score(res21, posieig = "none")
1252s > score(res21, posieig = "bottomri")
1252s > score(res21, posieig = c(0.5, 0.5))
1252s > score(res21, posieig = c(0.5, 0.5, 1, 1))
1253s > 
1253s > res22 <- ade4::inertia(coa2, row = FALSE, col = TRUE)
1253s > plot(res22, posieig = "none")
1253s > plot(res22, posieig = "bottomri")
1253s > plot(res22, posieig = c(0.5, 0.5))
1253s > plot(res22, posieig = c(0.5, 0.5, 1, 1))
1253s > score(res22, posieig = "none")
1253s > score(res22, posieig = "bottomri")
1253s > score(res22, posieig = c(0.5, 0.5))
1253s > score(res22, posieig = c(0.5, 0.5, 1, 1))
1253s > 
1253s > res23 <- ade4::inertia(coa2, row = TRUE, col = TRUE)
1253s > plot(res23, posieig = "none")
1253s > plot(res23, posieig = "bottomri")
1253s > plot(res23, posieig = c(0.5, 0.5))
1253s > plot(res23, posieig = c(0.5, 0.5, 1, 1))
1253s > score(res23, posieig = "none")
1253s > score(res23, posieig = "bottomri")
1253s > score(res23, posieig = c(0.5, 0.5))
1254s > score(res23, posieig = c(0.5, 0.5, 2, 2))
1254s > 
1254s > data(doubs, package = "ade4")
1254s > afc <- ade4::dudi.coa(doubs$fish, scannf = FALSE, nf = 5)
1254s > ic <- ade4::inertia.dudi(afc, row.inertia=TRUE, col.inertia=TRUE)
1254s > plot(ic, contrib = "abs", threshold = 0.1, type = "label")
1254s > plot(ic, contrib="abs", threshold = 0.1, type = "label", xax = 3, yax = 4) 
1254s > 
1254s > 
1254s > ##################### plot.acm
1254s > data(lascaux, package = "ade4")
1254s > 
1254s > acm1 <- ade4::dudi.acm(lascaux$ornem, sca = FALSE)
1254s > p1 <- proc.time()
1254s > ade4::scatter(acm1)
1254s > Tade4 <- proc.time() - p1
1254s > 
1254s > p2 <- proc.time()
1254s > plot(acm1, ppoints.cex = 0.3, plot = T)
1254s > Tadegraphics <- proc.time() - p2
1254s > ## faster calculus, longest display than for ade4
1254s > 
1254s > 
1254s > ##################### plot.fca
1254s > data(coleo, package = "ade4")
1254s > coleo.fuzzy <- ade4::prep.fuzzy.var(coleo$tab, coleo$col.blocks)
1254s 2 missing data found in block 1 
1254s 1 missing data found in block 3 
1254s 2 missing data found in block 4 
1254s > 
1254s > fca1 <- ade4::dudi.fca(coleo.fuzzy, scannf = FALSE, nf = 3)
1254s > ade4::scatter(fca1)
1255s > plot(fca1)
1255s > 
1255s 
1255s R version 4.5.2 (2025-10-31) -- "[Not] Part in a Rumble"
1255s Copyright (C) 2025 The R Foundation for Statistical Computing
1255s Platform: x86_64-pc-linux-gnu
1255s 
1255s R is free software and comes with ABSOLUTELY NO WARRANTY.
1255s You are welcome to redistribute it under certain conditions.
1255s Type 'license()' or 'licence()' for distribution details.
1255s 
1255s R is a collaborative project with many contributors.
1255s Type 'contributors()' for more information and
1255s 'citation()' on how to cite R or R packages in publications.
1255s 
1255s Type 'demo()' for some demos, 'help()' for on-line help, or
1255s 'help.start()' for an HTML browser interface to help.
1255s Type 'q()' to quit R.
1255s 
1255s > library(adegraphics)
1255s Registered S3 methods overwritten by 'adegraphics':
1255s   method         from
1255s   biplot.dudi    ade4
1255s   kplot.foucart  ade4
1255s   kplot.mcoa     ade4
1255s   kplot.mfa      ade4
1255s   kplot.pta      ade4
1255s   kplot.sepan    ade4
1255s   kplot.statis   ade4
1255s   scatter.coa    ade4
1255s   scatter.dudi   ade4
1255s   scatter.nipals ade4
1255s   scatter.pco    ade4
1255s   score.acm      ade4
1255s   score.mix      ade4
1255s   score.pca      ade4
1255s   screeplot.dudi ade4
1255s > pdf("adegraphics.pdf")
1255s > 
1255s > xy <- cbind.data.frame(runif(7), runif(7))
1255s > g1 <- s.label(xy)
1255s > 
1255s > data(olympic, package = "ade4")
1255s > pca <- ade4::dudi.pca(olympic$tab, scan = FALSE)
1255s > g2 <- s.corcircle(pca$co, lab = names(olympic$tab))
1255s > 
1255s > g3 <- ADEgS(list(g1, g2), rbind(c(0, 0, 0.5, 1), c(0.5, 0, 1, 1)))
1255s > g4 <- ADEgS(list(g1, g2), layout = c(1, 2)) ## the same as g3
1255s > g4b <- ADEgS(list(g1, g2)) ## the same as g3
1255s > g5 <- s.label(xy, plabels.cex = 0, paxes.draw = TRUE, ppoints.col = "red")
1255s > 
1255s > g6 <- superpose(g1, g5, plot = TRUE)
1255s > g6b <- s.density(xy)
1256s > g7 <- superpose(s.density(xy), g5, plot = TRUE)
1256s >  
1256s > g8 <- superpose(s.label(xy, plabels.boxes.col = "orange", plot = FALSE), 
1256s +                 s.label(xy, plabels.cex = 0, paxes.draw = TRUE, ppoints.col = "red", plot = FALSE), 
1256s +                 plot = TRUE)
1256s > 
1256s > g9 <- g8[1, drop = TRUE]
1256s > class(g9)
1256s [1] "S2.label"
1256s attr(,"package")
1256s [1] "adegraphics"
1256s > g10 <- g8[1, drop = FALSE]
1256s > class(g10)
1256s [1] "ADEgS"
1256s attr(,"package")
1256s [1] "adegraphics"
1256s > 
1256s > g11 <- ADEgS(list(g8, g3), positions = rbind(c(0, 0, 0.5, 1), c(0.5, 0, 1, 1)))
1256s > 
1256s > ## cbindADEgS - rbindADEgS
1256s > g12 <- cbindADEg(g1, g2, plot = TRUE) ## the same as g3
1256s > g13 <- cbindADEg(g8, g3, plot = TRUE) ## the same as g11
1256s > g14 <- rbindADEg(g8, g3, plot = TRUE)
1256s > 
1256s > data(banque, package = "ade4")
1256s > banque.acm <- ade4::dudi.acm(banque, scann = FALSE, nf = 3)
1256s > g15 <- score(banque.acm, which = which(banque.acm$cr[, 1] > 0.2), plot = FALSE)
1257s > g15 <- g15[[1]]
1257s > cbindADEg(g15[[1]], g15[[2]], plot = TRUE)   ## work on trellis object
1257s > 
1257s > 
1257s 
1257s R version 4.5.2 (2025-10-31) -- "[Not] Part in a Rumble"
1257s Copyright (C) 2025 The R Foundation for Statistical Computing
1257s Platform: x86_64-pc-linux-gnu
1257s 
1257s R is free software and comes with ABSOLUTELY NO WARRANTY.
1257s You are welcome to redistribute it under certain conditions.
1257s Type 'license()' or 'licence()' for distribution details.
1257s 
1257s R is a collaborative project with many contributors.
1257s Type 'contributors()' for more information and
1257s 'citation()' on how to cite R or R packages in publications.
1257s 
1257s Type 'demo()' for some demos, 'help()' for on-line help, or
1257s 'help.start()' for an HTML browser interface to help.
1257s Type 'q()' to quit R.
1257s 
1257s > library(ade4)
1257s > library(adegraphics)
1257s Registered S3 methods overwritten by 'adegraphics':
1257s   method         from
1257s   biplot.dudi    ade4
1257s   kplot.foucart  ade4
1257s   kplot.mcoa     ade4
1257s   kplot.mfa      ade4
1257s   kplot.pta      ade4
1257s   kplot.sepan    ade4
1257s   kplot.statis   ade4
1257s   scatter.coa    ade4
1257s   scatter.dudi   ade4
1257s   scatter.nipals ade4
1257s   scatter.pco    ade4
1257s   score.acm      ade4
1257s   score.mix      ade4
1257s   score.pca      ade4
1257s   screeplot.dudi ade4
1257s 
1257s Attaching package: 'adegraphics'
1257s 
1257s > library(sp)
1257s The following objects are masked from 'package:ade4':
1257s 
1257s     kplotsepan.coa, s.arrow, s.class, s.corcircle, s.distri, s.image,
1257s     s.label, s.logo, s.match, s.traject, s.value, table.value,
1257s     triangle.class
1257s 
1257s > library(lattice)
1257s > 
1257s > pdf("nbgraph.pdf")
1257s > 
1257s > if(require(spdep)) {
1257s + data(elec88, package = "ade4")
1257s + coords <- sp::coordinates(elec88$Spatial)
1257s + 
1257s + xyplot(coords[, 2] ~ coords[, 1],
1257s +   		 panel = function(...) {adeg.panel.nb(elec88$nb, coords)})
1257s + 
1257s + g1 <- s.label(coords, nb = elec88$nb, porigin.include = F, plabels.cex = 0.7, 
1257s +               ppoints.cex = 2, Sp = elec88$Spatial, pSp.col = "red", pSp.alpha = 0.5)
1257s Loading required package: spdep
1257s + }
1257s Loading required package: spData
1257s To access larger datasets in this package, install the spDataLarge
1257s package with: `install.packages('spDataLarge',
1257s repos='https://nowosad.github.io/drat/', type='source')`
1257s Loading required package: sf
1257s Linking to GEOS 3.14.1, GDAL 3.12.1, PROJ 9.7.0; sf_use_s2() is TRUE
1257s 
1257s Attaching package: 'spdep'
1257s 
1257s The following object is masked from 'package:ade4':
1257s 
1257s     mstree
1257s 
1257s > 
1258s 
1258s R version 4.5.2 (2025-10-31) -- "[Not] Part in a Rumble"
1258s Copyright (C) 2025 The R Foundation for Statistical Computing
1258s Platform: x86_64-pc-linux-gnu
1258s 
1258s R is free software and comes with ABSOLUTELY NO WARRANTY.
1258s You are welcome to redistribute it under certain conditions.
1258s Type 'license()' or 'licence()' for distribution details.
1258s 
1258s R is a collaborative project with many contributors.
1258s Type 'contributors()' for more information and
1258s 'citation()' on how to cite R or R packages in publications.
1258s 
1258s Type 'demo()' for some demos, 'help()' for on-line help, or
1258s 'help.start()' for an HTML browser interface to help.
1258s Type 'q()' to quit R.
1258s 
1258s > library(ade4)
1258s > library(adegraphics)
1258s Registered S3 methods overwritten by 'adegraphics':
1258s   method         from
1258s   biplot.dudi    ade4
1258s   kplot.foucart  ade4
1258s   kplot.mcoa     ade4
1258s   kplot.mfa      ade4
1258s   kplot.pta      ade4
1258s   kplot.sepan    ade4
1258s   kplot.statis   ade4
1258s   scatter.coa    ade4
1258s   scatter.dudi   ade4
1258s   scatter.nipals ade4
1258s   scatter.pco    ade4
1258s   score.acm      ade4
1258s   score.mix      ade4
1258s   score.pca      ade4
1258s   screeplot.dudi ade4
1258s 
1258s Attaching package: 'adegraphics'
1258s 
1258s The following objects are masked from 'package:ade4':
1258s 
1258s     kplotsepan.coa, s.arrow, s.class, s.corcircle, s.distri, s.image,
1258s     s.label, s.logo, s.match, s.traject, s.value, table.value,
1258s     triangle.class
1258s 
1258s > library(sp)
1258s > pdf("panelSpatial.pdf")
1258s > 
1258s > ## ex1
1258s > data(mafragh, package = "ade4")
1258s > dfxy1 <- coordinates(mafragh$Spatial)
1258s > g1 <- s.label(dfxy1, Sp = mafragh$Spatial, pSp.col = colorRampPalette(c("yellow", "blue"))(97), pgrid.draw = FALSE, plabels.cex = 0)
1258s > 
1258s > 
1258s > ## ex2
1258s > data(meuse, package = "sp")
1258s > coordinates(meuse) <- ~ x + y
1258s > data(meuse.grid, package = "sp")
1258s > m <- SpatialPixelsDataFrame(points = meuse.grid[c("x", "y")], data = meuse.grid)
1258s > data(meuse.riv)
1258s > meuse.sr <- SpatialPolygons(list(Polygons(list(Polygon(meuse.riv)), "meuse.riv")))
1258s > 
1258s > scale1 <- list("SpatialPolygonsRescale", offset = c(179900, 329600), scale = 500, fill = c("transparent", "black"), layout.scale.bar())
1258s > text11 <- list("sp.text", c(179900, 329700), "0")
1258s > text21 <- list("sp.text", c(180400, 329700), "500 m")
1258s > arrow1 <- list("SpatialPolygonsRescale", offset = c(178750, 332500), scale = 400, layout.north.arrow())
1258s > river <- list("sp.polygons", meuse.sr, fill = "lightblue")
1258s > dfxy2 <- as.data.frame(coordinates(meuse))
1258s > g2 <- s.value(dfxy2, z = meuse[, 1]$cadmium, sp.layout = list(scale1, text11, text21, arrow1, river), Sp = m)
1258s > 
1258s > fac <- meuse@data$ffreq
1258s > levels(fac)[1] <- "1 in 2 years"
1258s > levels(fac)[2] <- "1 in 10 years"
1258s > levels(fac)[3] <- "1 in 50 years"
1258s > arrow2 <- list("SpatialPolygonsRescale", layout.north.arrow(), offset = c(181750, 330000), scale = 400)
1258s > scale2 <- list("SpatialPolygonsRescale", layout.scale.bar(), offset =  c(178050, 333600), scale = 500, fill = c("transparent", "black"))
1258s > text12 <- list("sp.text", c(178050, 333700), "0")
1258s > text22 <- list("sp.text", c(178550, 333700), "500 m")
1258s > g3 <- s.class(dfxy2, fac = fac, sp.layout = list(scale2, text12, text22, arrow2, river), starSize = 1, col = c(1, 2, 4), pellipses.col = c(1, 2, 4), 
1258s +   pellipses.alpha = 0.7, plines.lty = 3, psub.text = "Flooding frequency \n near the Meuse river", psub.pos = c(0.2, 0.88), pgrid.text.cex = 0,
1258s +   porigin.include = FALSE, Sp = meuse.sr)
1258s > 
1258s > ## ex3
1258s > if(require(Guerry)) {
1258s +   data(gfrance85)
1258s + 
1258s +   dfxy4 <- coordinates(gfrance85)
1258s +   region.names <- data.frame(gfrance85)[, 5]
1258s +   col.region <- colors()[c(149, 254, 468, 552, 26)]
1258s +   g4 <- s.class(dfxy4, region.names, ellip = 0, star = 0, col = col.region, Sp = gfrance85, pSp.col = col.region[region.names], porig.inclu = F)
1258s + }
1258s Loading required package: Guerry
1258s > 
1258s > ## ex4
1258s > library(sp)
1258s > library(lattice)
1258s > 
1258s > data(elec88, package = "ade4")
1258s > sp <- elec88$Spatial
1258s > 
1258s > g5 <- xyplot(1 ~ 1, xlim = bbox(sp)[1, ], ylim = bbox(sp)[2, ], panel = function(...) {adeg.panel.Spatial(SpObject = sp, col = "black", border = "black")})
1258s > g6 <- xyplot(1 ~ 1, xlim = bbox(sp)[1, ], ylim = bbox(sp)[2, ], panel = function(...) {adeg.panel.Spatial(sp, col = 1:14, border = "black")})
1258s > g7 <- xyplot(1 ~ 1, xlim = bbox(sp)[1, ], ylim = bbox(sp)[2, ], aspect = "iso", panel = function(...) {sp.polygons(sp, col = "black", fill = 1:5)})
1258s > g8 <- xyplot(1 ~ 1, xlim = bbox(sp)[1, ], ylim = bbox(sp)[2, ], panel = function(...) {adeg.panel.Spatial(SpObject = sp, col = "black", border = "blue")})
1258s > g9 <- xyplot(1 ~ 1, xlim = bbox(sp)[1, ], ylim = bbox(sp)[2, ], panel = function(...) {adeg.panel.Spatial(SpObject = sp, col = "black", border = "blue")})
1258s > #g10 <- s.label(cbind(-80, 35), Sp = nc)
1258s > #g11 <- s.label(cbind(-80, 35), Sp = sp)
1258s > 
1258s > 
1258s > ## ex5
1258s > data(jv73, package = "ade4")
1258s > g12 <- s.label(jv73$xy, Sp = jv73$Spatial)
1259s > g13 <- s.label(jv73$xy, Sp = jv73$Spatial, pSp.col = "red")
1259s > 
1259s > spoints <- SpatialPoints(jv73$xy)
1259s > g14 <- s.label(jv73$xy, Sp = spoints, plab.cex = 0, ppoin.cex = 0, pSp.col = 1)
1259s > 
1259s > sgrid <- SpatialGrid(GridTopology(c(0, 0), c(1, 1), c(3, 5)))
1259s > xyplot(0:5 ~ 0:3, panel = function(...) sp.grid(sgrid, col = 1:2))
1259s > 
1259s > nc <- SpatialGridDataFrame(getGridTopology(sgrid), data = data.frame(matrix(1:15, ncol = 1)))
1259s > xyplot(0:5 ~ 0:3, panel = function(...) sp.grid(nc, col = 1, at = pretty(rnorm(15), 2), col.region = 2:3))
1259s > xyplot(0:5 ~ 0:3, panel = function(...) adeg.panel.Spatial(nc, col = 1:3))
1259s > xyplot(0:5 ~ 0:3, panel = function(...) adeg.panel.Spatial(nc, col = 1:2))
1259s > 
1259s > 
1259s > ## ex6
1259s > mysp <- SpatialPointsDataFrame(matrix(rnorm(20), 10), data.frame(matrix(rnorm(20), 10)))
1259s > s.Spatial(mysp)
1259s > s.Spatial(mysp, col = c("red", "blue"))
1259s > s.Spatial(mysp, ppoints.cex = 2)
1259s > s.Spatial(mysp, ppoints.alpha = 0.5)
1259s > s.Spatial(mysp, symbol = "circle")
1259s > s.Spatial(mysp, method = "color", ppalette.quanti = colorRampPalette(c("red", "white", "blue")))
1259s > 
1259s 
1259s R version 4.5.2 (2025-10-31) -- "[Not] Part in a Rumble"
1259s Copyright (C) 2025 The R Foundation for Statistical Computing
1259s Platform: x86_64-pc-linux-gnu
1259s 
1259s R is free software and comes with ABSOLUTELY NO WARRANTY.
1259s You are welcome to redistribute it under certain conditions.
1259s Type 'license()' or 'licence()' for distribution details.
1259s 
1259s R is a collaborative project with many contributors.
1259s Type 'contributors()' for more information and
1259s 'citation()' on how to cite R or R packages in publications.
1259s 
1259s Type 'demo()' for some demos, 'help()' for on-line help, or
1259s 'help.start()' for an HTML browser interface to help.
1259s Type 'q()' to quit R.
1259s 
1259s > library(ade4)
1259s > library(adegraphics)
1259s Registered S3 methods overwritten by 'adegraphics':
1259s   method         from
1259s   biplot.dudi    ade4
1259s   kplot.foucart  ade4
1259s   kplot.mcoa     ade4
1259s   kplot.mfa      ade4
1259s   kplot.pta      ade4
1259s   kplot.sepan    ade4
1259s   kplot.statis   ade4
1259s   scatter.coa    ade4
1259s   scatter.dudi   ade4
1259s   scatter.nipals ade4
1259s   scatter.pco    ade4
1259s   score.acm      ade4
1259s   score.mix      ade4
1259s   score.pca      ade4
1259s   screeplot.dudi ade4
1259s > pdf("parameter.pdf")
1259s 
1259s Attaching package: 'adegraphics'
1259s 
1259s The following objects are masked from 'package:ade4':
1259s 
1259s     kplotsepan.coa, s.arrow, s.class, s.corcircle, s.distri, s.image,
1259s     s.label, s.logo, s.match, s.traject, s.value, table.value,
1259s     triangle.class
1259s 
1259s > 
1259s > adegparold <- adegpar()
1259s > b1 <- length(adegraphics:::separation(plines = list(col = "blue"), plab.bo.dra = FALSE, plab = list(orien = F))$rest) == 0
1259s > b2 <- length(adegraphics:::separation(plines = list(col = "blue", lwd = c(1:5)), parr.end = NA, plab.boxes.dr = FALSE)$rest) == 0
1259s > b3 <- length(adegraphics:::separation(plot.li = list(col = "blue", lwd = c(1:5)), par.end = NA, pl.boxes.draw = FALSE, pattern = 1)$rest) == 2
1259s > b4 <- length(adegraphics:::separation(plot.li = list(col = "blue", lwd = c(1:5)), par.end = NA, pl.boxes.draw = FALSE, pattern = 0)$rest) == 2
1259s > b5 <- length(adegraphics:::separation()) == 2
1259s > b6 <- length(adegraphics:::separation(par.sub.text = list("lineheight" = 5), pattern = 1)$rest) == 0
1259s > b7 <- names(adegraphics:::separation(toto = "rienavoir!")$rest) == "toto"
1259s > b8 <- names(adegraphics:::separation(toto = "rienavoir!", pattern = 1)$rest) == "toto"
1259s > 
1259s > l1 <- list(parrow = list(col = "blue", lwd = c(1:5), end = NA), plboxes.draw = FALSE, pattern = 1)
1259s > sep1 <- adegraphics:::separation(l1)  ## no recognition of "pattern" in a list
1259s > 
1259s > l2 <- list("parrow.lwd", "plboxes.draw")
1259s > sep2 <- adegraphics:::separation(l2)
1259s > 
1259s > sep3 <- adegraphics:::separation("plboxes" = list("draw" = FALSE, "col"))
1259s > sep4 <- adegraphics:::separation("plboxes" = list("draw" = FALSE, "col" = 2))
1259s > sep5 <- adegraphics:::separation(pla.box = list(col = 1:5))
1259s > sep6 <- adegraphics:::separation(pla.box.col = c(1:5))
1259s > sep7 <- adegraphics:::separation(pla = list(box.col = 1:5))  ## don't match
1259s > 
1259s > 
1259s > ## adegpar test
1259s > ad1 <- adegpar()
1259s > ad2 <- adegpar("paxes.draw")
1259s > ad3 <- adegpar("paxes.draw", "psub.cex")
1259s > 
1259s > ad4 <- adegpar("psub.cex" = 5)
1259s > ad5 <- adegpar("psub.cex" = 5, paxes.draw = FALSE)
1259s > ad6 <- adegpar("psub")
1259s > ad7 <- adegpar("psub.cex", "plabe.boxes")
1259s > 
1259s > ad8 <- adegpar(ppoints = list(col = "yellow"), pgrid.space = 4, plines = list(lwd = c(1:5)))
1259s > ad9 <- adegpar(ppoints = list(col = "red"), pgrid = list(nint = 12), plines = list(lwd = c(1:5)))
1259s > ad10 <- adegpar("ppoints.col", "pgrid.nint", "plines")
1259s > 
1259s > ad11 <- adegpar(paxes = list("x"), pgrid = list("nint", "col"))
1259s > ad12 <- adegpar(list(pellip = list(col = "red"), grid.nint = 8, plines = list(lwd = c(1:5))))
1259s > ad13 <- adegpar(paxes = list("x"), pgrid = list("nint", "col"), "plines", "pellipse")
1259s > 
1259s > ad14 <- adegpar(plegend.drawKey = FALSE)
1259s > ad15 <- adegpar(list(paxes = list(col = "white"), pgrid.nint = 6, plines = list(lwd = c(1:5))))
1259s > ad16 <- adegpar(paxes = list(x = list(draw = TRUE)))
1259s > 
1259s > adegpar(adegparold)
1259s > 
1259s > ## merging list
1259s > l3 <- list(plabels = list(boxes = list(col = "white", alpha = 1)), plabels = list(cex = 2), plabels = list(col = "red"))
1259s > adegraphics:::.mergingList(l3)
1259s $plabels
1259s $plabels$boxes
1259s $plabels$boxes$col
1259s [1] "white"
1259s 
1259s $plabels$boxes$alpha
1259s [1] 1
1259s 
1259s 
1259s $plabels$cex
1259s [1] 2
1259s 
1259s $plabels$col
1259s [1] "red"
1259s 
1259s 
1259s > adegraphics:::.mergingList(list(plabels = list(cex = 3)))
1259s $plabels
1259s $plabels$cex
1259s [1] 3
1259s 
1259s 
1259s > 
1259s > 
1259s > ## update parameters in graphics
1259s > cha <- rep(LETTERS, length.out = 100)
1259s > xy <- cbind.data.frame(runif(length(cha)), runif(length(cha)))
1259s > g1 <- s.label(xy, labels = cha, paxes.draw = TRUE, plabels.cex = runif(length(cha), 0.5, 1.5))
1260s > update(g1, paxes = list(aspect = "fill", draw = TRUE, x = list(draw = FALSE)), 
1260s +   pgrid = list(col = "black", lwd = 2, lty = 5), 
1260s +   plabels = list(col = 1:4, alpha = 0.5, cex = 2, boxes = list(border = "blue", col = "antiquewhite", alpha = 0.2, lwd = 2.5, lty = 5))) 
1260s > 
1260s > g2 <- s.label(xy, labels = cha)
1260s > update(g2, paxes.draw = FALSE, pgrid = list(col = "blue", lwd = 2, lty = 5, text = list(pos = "bottomright", cex = 2, col = "green")))
1260s > update(g2, porigin = list(alpha = 0.5, col = "red", lty = 5 , lwd = 2, origin = c(0.6, 0.1)), pgrid.lwd = 0.5)
1260s > update(g2, psub = list(text = "parameters", cex = 2, col = "red", position = "topright"))
1260s > update(g2, plabels.cex = 0, ppoints = list(alpha = 0.4, cex = 2, col = "red", fill = "blue", pch = 21))
1260s > 
1260s > 
1260s > ## from tdr641
1260s > data(doubs, package = "ade4")
1260s > dudi1 <- ade4::dudi.pca(doubs$env, scale = T, scannf = F, nf = 3)
1260s > dudi2 <- ade4::dudi.pca(doubs$fish, scale = T, scannf = F, nf = 2)
1260s > coin1 <- ade4::coinertia(dudi1, dudi2, scannf = F, nf = 2)
1260s > g3 <- s.arrow(coin1$l1, plabels.cex = .87)
1260s > update(g3, plines = list(col = "blue", lwd = 2, lty = 3), parr.end = "both", parr = list(angle = 25, length = 0.5))
1260s > 
1260s > ## with spatial object
1260s > data(elec88, package = "ade4")
1260s > g4 <- s.label(elec88$xy, label = as.character(1:nrow(elec88$xy)), porigin.include = FALSE, Sp = elec88$Spatial, pSp.col = colorRampPalette(c("yellow", "blue"))(5), pgrid.draw = TRUE)
1260s > update(g4, pSp = list(col = "yellow", border = "blue", lwd = 2, lty = 5, alpha = 0.01)) ## don't match : to solve
1260s > 
1260s > ## plabels parameter
1260s > data(tortues, package = "ade4")
1260s > pturtles <- tortues
1260s > names(pturtles) <- c("length", "width", "height", "sex")
1260s > sex <- pturtles$sex
1260s > sexcol <- ifelse(sex == "M", "blue", "red")
1260s > measures <- pturtles[, 1:3]
1260s > pca1 <- ade4::dudi.pca(measures, scann = FALSE, nf = 3)
1260s > g5 <- scatter(pca1, row.plabel.cex = 0, col.plabel.cex = c(1, 2, 3), posieig = "none", col.plabel.col = c("red", "blue", "green"))
1261s > 
1261s 
1261s R version 4.5.2 (2025-10-31) -- "[Not] Part in a Rumble"
1261s Copyright (C) 2025 The R Foundation for Statistical Computing
1261s Platform: x86_64-pc-linux-gnu
1261s 
1261s R is free software and comes with ABSOLUTELY NO WARRANTY.
1261s You are welcome to redistribute it under certain conditions.
1261s Type 'license()' or 'licence()' for distribution details.
1261s 
1261s R is a collaborative project with many contributors.
1261s Type 'contributors()' for more information and
1261s 'citation()' on how to cite R or R packages in publications.
1261s 
1261s Type 'demo()' for some demos, 'help()' for on-line help, or
1261s 'help.start()' for an HTML browser interface to help.
1261s Type 'q()' to quit R.
1261s 
1261s > library(adegraphics)
1261s Registered S3 methods overwritten by 'adegraphics':
1261s   method         from
1261s   biplot.dudi    ade4
1261s   kplot.foucart  ade4
1261s   kplot.mcoa     ade4
1261s   kplot.mfa      ade4
1261s   kplot.pta      ade4
1261s   kplot.sepan    ade4
1261s   kplot.statis   ade4
1261s   scatter.coa    ade4
1261s   scatter.dudi   ade4
1261s   scatter.nipals ade4
1261s   scatter.pco    ade4
1261s   score.acm      ade4
1261s   score.mix      ade4
1261s   score.pca      ade4
1261s   screeplot.dudi ade4
1261s > pdf("s.arrow.pdf")
1261s > 
1261s > ## ex1 : from tdr641
1261s > data(doubs, package = "ade4") 
1261s > dudi1 <- ade4::dudi.pca(doubs$env, scale = T, scan = F, nf = 3)
1261s > dudi2 <- ade4::dudi.pca(doubs$fish, scale = T, scan = F, nf = 2)
1261s > coin1 <- ade4::coinertia(dudi1, dudi2, scan = F, nf = 2)
1261s > g1 <- s.arrow(coin1$l1, plabels.cex = 0.87)
1261s > g2 <- s.arrow(coin1$c1, plabels.cex = 1)
1261s > 
1261s > ## ex2 : from bs81
1261s > data(granulo, package = "ade4")
1261s > w <- data.frame(t(apply(granulo$tab, 1, function(x) x / sum(x))))
1261s > g3 <- s.arrow(ade4::dudi.pca(data.frame(w), scan = F, nf = 2)$co)
1261s > 
1261s > wtr <- data.frame(t(w))
1261s > wmoy <- data.frame(matrix(apply(wtr, 1, mean), 1))
1261s > dudi3 <- ade4::dudi.pca(w, scal = FALSE, scan = FALSE)
1261s > wmoy <- ade4::suprow(dudi3, wmoy)$lisup
1261s > 
1261s > g4 <- s.arrow(dudi3$c1, plabels.cex = 1.5)
1261s > g4 <- s.distri(dudi3$c1, wtr, starSize = 0.33, ellipseSize = 0, add = TRUE, plabels.cex = 1)
1261s > g4 <- s.label(wmoy, ppoint.cex = 5, plabels.cex = 0, add = TRUE)
1261s > 
1261s > ## ex3
1261s > data(deug, package = "ade4")
1261s > pca1 <- ade4::dudi.pca(deug$tab, scal = FALSE, center = deug$cent, scan = FALSE)
1261s > g5 <- s.arrow(40 * pca1$c1)
1261s > 
1261s > ## ex4
1261s > xy <- cbind(rnorm(50), rnorm(50))
1261s > g6 <- s.arrow(xy, plabels.cex = 0.9, parrows = list(angle = 20))
1261s > 
1261s 
1261s R version 4.5.2 (2025-10-31) -- "[Not] Part in a Rumble"
1261s Copyright (C) 2025 The R Foundation for Statistical Computing
1261s Platform: x86_64-pc-linux-gnu
1261s 
1261s R is free software and comes with ABSOLUTELY NO WARRANTY.
1261s You are welcome to redistribute it under certain conditions.
1261s Type 'license()' or 'licence()' for distribution details.
1261s 
1261s R is a collaborative project with many contributors.
1261s Type 'contributors()' for more information and
1261s 'citation()' on how to cite R or R packages in publications.
1261s 
1261s Type 'demo()' for some demos, 'help()' for on-line help, or
1261s 'help.start()' for an HTML browser interface to help.
1261s Type 'q()' to quit R.
1261s 
1261s > library(adegraphics)
1262s Registered S3 methods overwritten by 'adegraphics':
1262s   method         from
1262s   biplot.dudi    ade4
1262s   kplot.foucart  ade4
1262s   kplot.mcoa     ade4
1262s   kplot.mfa      ade4
1262s   kplot.pta      ade4
1262s   kplot.sepan    ade4
1262s   kplot.statis   ade4
1262s   scatter.coa    ade4
1262s   scatter.dudi   ade4
1262s   scatter.nipals ade4
1262s   scatter.pco    ade4
1262s   score.acm      ade4
1262s   score.mix      ade4
1262s   score.pca      ade4
1262s   screeplot.dudi ade4
1262s > pdf("s.class.pdf")
1262s > 
1262s > xy0 <- cbind.data.frame(x = runif(20, -1, 1), y = runif(20, -1, 6))
1262s > basic <- s.class(xy0, fac = factor(rep(c("A", "B"), le = 20)), chull = 0, star = 0)
1262s > 
1262s > xy1 <- cbind.data.frame(x = runif(200, -1, 1), y = runif(200, -1, 6))
1262s > fac1 <- factor(xy1$x > 0) : factor(xy1$y > 0)
1262s > g1 <- s.class(xy1, fac = fac1, storeData = F, col = 1:4, pbackground.box = T, pbackground.col = grey(0.85), paxes.draw = T, ell = 0)
1262s > 
1262s > ## multiaxis
1262s > xy2 <- cbind.data.frame(x = runif(200, -1, 1), y = runif(200, -2, 2), y2 = runif(200, -0.5, .5))
1262s > fac2 <- factor(xy2$x > 0) 
1262s > g2 <- s.class(xy2, fac = fac2, xax = 1, yax = 2:3, storeData = F, plot = F)
1262s > print(g2)
1262s > 
1262s > ## insertion
1262s > print(ADEgS(list(g1, g2), posi = rbind(c(0, 0, 1, 1), c(0.7, 0.5, 1, 0.9))))
1262s > 
1262s > ## color test
1262s > g3 <- s.class(xy1, fac = fac2, psub.text = "Graphic 3", "ppoints.col" = 1:5, plabels.boxes = list(col = "white", alpha = 0.8), pellipses.col = 1:5, col = 1:5)
1262s > 
1262s > ## test convex hull and parameters
1262s > xy4 <- cbind.data.frame(x = runif(200, -1, 1), y = runif(200, -1, 1))
1262s > fac4 <- factor(xy4$x > 0) : factor(xy4$y > 0)
1262s > col <- c("black", "red", "green", "blue")
1262s > g4 <- s.class(xy4, fac4, ppoints.cex = 1.5, chull = T, ellipseSize = 0, starSize = 0, ppolygon = list(border = 4:1, col = 1:4, lty = 1:4, lwd = 2, alpha = 0.4))
1262s > 
1262s > 
1262s 
1262s R version 4.5.2 (2025-10-31) -- "[Not] Part in a Rumble"
1262s Copyright (C) 2025 The R Foundation for Statistical Computing
1262s Platform: x86_64-pc-linux-gnu
1262s 
1262s R is free software and comes with ABSOLUTELY NO WARRANTY.
1262s You are welcome to redistribute it under certain conditions.
1262s Type 'license()' or 'licence()' for distribution details.
1262s 
1262s R is a collaborative project with many contributors.
1262s Type 'contributors()' for more information and
1262s 'citation()' on how to cite R or R packages in publications.
1262s 
1262s Type 'demo()' for some demos, 'help()' for on-line help, or
1262s 'help.start()' for an HTML browser interface to help.
1262s Type 'q()' to quit R.
1262s 
1262s > library(adegraphics)
1262s Registered S3 methods overwritten by 'adegraphics':
1262s   method         from
1262s   biplot.dudi    ade4
1262s   kplot.foucart  ade4
1262s   kplot.mcoa     ade4
1262s   kplot.mfa      ade4
1262s   kplot.pta      ade4
1262s   kplot.sepan    ade4
1262s   kplot.statis   ade4
1262s   scatter.coa    ade4
1262s   scatter.dudi   ade4
1262s   scatter.nipals ade4
1262s   scatter.pco    ade4
1262s   score.acm      ade4
1262s   score.mix      ade4
1262s   score.pca      ade4
1262s   screeplot.dudi ade4
1263s > pdf("s.corcircle.pdf")
1263s > data(olympic, package = "ade4")
1263s > 
1263s > dudi1 <- ade4::dudi.pca(olympic$tab, scan = FALSE) # a normed PCA
1263s > g1 <- s.corcircle(dudi1$co, lab = names(olympic$tab))
1263s > 
1263s > g2 <- s.corcircle(dudi1$co, lab = names(olympic$tab), fullcircle = T)
1263s > g3 <- s.corcircle(dudi1$co, lab = names(olympic$tab), fullcircle = FALSE)
1263s > g4 <- s.corcircle(dudi1$co, lab = names(olympic$tab), pback.col = "red", pbackground.box = FALSE)
1263s > 
1263s 
1263s R version 4.5.2 (2025-10-31) -- "[Not] Part in a Rumble"
1263s Copyright (C) 2025 The R Foundation for Statistical Computing
1263s Platform: x86_64-pc-linux-gnu
1263s 
1263s R is free software and comes with ABSOLUTELY NO WARRANTY.
1263s You are welcome to redistribute it under certain conditions.
1263s Type 'license()' or 'licence()' for distribution details.
1263s 
1263s R is a collaborative project with many contributors.
1263s Type 'contributors()' for more information and
1263s 'citation()' on how to cite R or R packages in publications.
1263s 
1263s Type 'demo()' for some demos, 'help()' for on-line help, or
1263s 'help.start()' for an HTML browser interface to help.
1263s Type 'q()' to quit R.
1263s 
1263s > library(adegraphics)
1263s Registered S3 methods overwritten by 'adegraphics':
1263s   method         from
1263s   biplot.dudi    ade4
1263s   kplot.foucart  ade4
1263s   kplot.mcoa     ade4
1263s   kplot.mfa      ade4
1263s   kplot.pta      ade4
1263s   kplot.sepan    ade4
1263s   kplot.statis   ade4
1263s   scatter.coa    ade4
1263s   scatter.dudi   ade4
1263s   scatter.nipals ade4
1263s   scatter.pco    ade4
1263s   score.acm      ade4
1263s   score.mix      ade4
1263s   score.pca      ade4
1263s   screeplot.dudi ade4
1263s > pdf("s.density.pdf")
1263s > 
1263s > xx1 <- rnorm(1000, 1, 2)
1263s > yy1 <- rnorm(1000, 1, 2)
1263s > 
1263s > g1 <- s.density(cbind(xx1, yy1), paxes.draw = T, gridsize = c(40, 40))
1263s > g2 <- s.density(cbind(xx1, yy1), paxes.draw = T, gridsize = c(80, 80), col = colorRampPalette(c("red", "blue"))(58), storeData = FALSE, region = TRUE)
1263s > g3 <- s.density(cbind(yy1 + 3, xx1 + 3), gridsize = c(400, 400))
1263s > g4 <- s.density(cbind(xx1, yy1), paxes.draw = T, gridsize = c(200, 200), add = TRUE)
1264s > g5 <- s.density(cbind(c(rnorm(50000, 1, 1), rnorm(50000, -1, 1)), c(rnorm(50000, -1, 0.5), rnorm(50000, 1, 0.5))), paxes.draw = T, gridsize = c(200, 200), region = TRUE, contour = TRUE, plabels.cex = 1, plabels.srt = "vertial")
1264s > g6 <- s.density(cbind(rnorm(300, 3, 0.3), rnorm(300, -2, 0.5)), gridsize = c(500, 500), thres = 0.01, nr = 10, regions = list(alpha = 0.5), col = colorRampPalette(c("red", "blue"))(108))
1264s > g7 <- s.density(cbind(c(rnorm(50000, 1, 1), rnorm(50000, -1, 1)), c(rnorm(50000, -1, 0.5), rnorm(50000, 1, 0.5))), paxes.draw = T, gridsize = c(100, 100), region = TRUE, contour = TRUE, plabels.cex = 1, nclass = 5)
1265s > 
1265s 
1265s R version 4.5.2 (2025-10-31) -- "[Not] Part in a Rumble"
1265s Copyright (C) 2025 The R Foundation for Statistical Computing
1265s Platform: x86_64-pc-linux-gnu
1265s 
1265s R is free software and comes with ABSOLUTELY NO WARRANTY.
1265s You are welcome to redistribute it under certain conditions.
1265s Type 'license()' or 'licence()' for distribution details.
1265s 
1265s R is a collaborative project with many contributors.
1265s Type 'contributors()' for more information and
1265s 'citation()' on how to cite R or R packages in publications.
1265s 
1265s Type 'demo()' for some demos, 'help()' for on-line help, or
1265s 'help.start()' for an HTML browser interface to help.
1265s Type 'q()' to quit R.
1265s 
1265s > library(adegraphics)
1265s Registered S3 methods overwritten by 'adegraphics':
1265s   method         from
1265s   biplot.dudi    ade4
1265s   kplot.foucart  ade4
1265s   kplot.mcoa     ade4
1265s   kplot.mfa      ade4
1265s   kplot.pta      ade4
1265s   kplot.sepan    ade4
1265s   kplot.statis   ade4
1265s   scatter.coa    ade4
1265s   scatter.dudi   ade4
1265s   scatter.nipals ade4
1265s   scatter.pco    ade4
1265s   score.acm      ade4
1265s   score.mix      ade4
1265s   score.pca      ade4
1265s   screeplot.dudi ade4
1265s > pdf("s.distri.pdf")
1265s > 
1265s > xy5 <- cbind.data.frame(x = runif(200, -1, 1), y = runif(200, -1, 1))
1265s > w1 <- as.numeric((xy5$x > 0) & (xy5$y > 0))
1265s > w2 <- ((xy5$x > 0) & (xy5$y < 0)) * (1 - xy5$y) * xy5$x
1265s > w3 <- ((xy5$x < 0) & (xy5$y > 0)) * (1 - xy5$x) * xy5$y
1265s > w4 <- ((xy5$x < 0) & (xy5$y < 0)) * xy5$y * xy5$x
1265s > distri <- data.frame(a = w1 / sum(w1), b = w2 / sum(w2), c = w3 / sum(w3), d = w4 / sum(w4))
1265s > g5 <- s.distri(xy5, distri, plabels.boxes = list(col = "white", alpha = 1), plabels.cex = 2, plabels.col = 1:5)
1265s > 
1265s > data(rpjdl, package = "ade4")
1265s > xy6 <- ade4::dudi.coa(rpjdl$fau, scan = FALSE)$li + 3
1265s > g6 <- s.distri(xy6, rpjdl$fau[, 5], ellipseSize = 1.5, psub = list(text = rpjdl$frlab[5], cex = 2, pos = c(0.2, 0.1)))
1265s > g7 <- s.distri(xy6, rpjdl$fau[, 5], ellipseSize = 1.5, psub = list(text = rpjdl$frlab[5], cex = 2, pos = c(0.2, 0.1)), porigin = list(include = FALSE), pellipses.axes.col = "blue")
1265s > 
1265s > ## test add
1265s > g8 <- s.distri(xy6, rpjdl$fau[, 5], ellipseSize = 1.5, psub = list(text = rpjdl$frlab[5], cex = 2, pos = c(0.2, 0.1)), porigin.include = FALSE, pellipses = list(col = "blue"))
1265s > g9 <- s.distri(xy6, rpjdl$fau[, 12], ellipseSize = 1.5, psub = list(text = rpjdl$frlab[5], cex = 2, pos = c(0.2, 0.1)), porigin.include = FALSE, pellipses = list(col = "red"), add = TRUE)
1265s > show(g9) ## g8 is a superposition, an ADEgS object 
1265s > 
1265s > ## add
1265s > index <- c(1, 5, 8, 20, 21, 23, 26, 33, 36, 44, 47, 49)
1265s > col <- colorRampPalette(c("blue", "red", "orange"))(49)
1265s > s.distri(xy6, rpjdl$fau[, 1], ellipseSize = 1, starSize = 0, porigin.include = FALSE, pellipses = list(col = col[1], alpha = 0.3))
1265s > for(i in index[-1])
1265s +    s.distri(xy6, rpjdl$fau[, i], ellipseSize = 1, starSize = 0, porigin.include = FALSE, pellipses = list(col = col[i], alpha = 0.3), add = TRUE)
1265s > 
1265s > current <- get("currentadeg", env = adegraphics:::.ADEgEnv)
1265s > print(current[[6]])
1266s > length(current) == length(index)
1266s [1] TRUE
1266s > 
1266s 
1266s R version 4.5.2 (2025-10-31) -- "[Not] Part in a Rumble"
1266s Copyright (C) 2025 The R Foundation for Statistical Computing
1266s Platform: x86_64-pc-linux-gnu
1266s 
1266s R is free software and comes with ABSOLUTELY NO WARRANTY.
1266s You are welcome to redistribute it under certain conditions.
1266s Type 'license()' or 'licence()' for distribution details.
1266s 
1266s R is a collaborative project with many contributors.
1266s Type 'contributors()' for more information and
1266s 'citation()' on how to cite R or R packages in publications.
1266s 
1266s Type 'demo()' for some demos, 'help()' for on-line help, or
1266s 'help.start()' for an HTML browser interface to help.
1266s Type 'q()' to quit R.
1266s 
1266s > library(adegraphics)
1266s Registered S3 methods overwritten by 'adegraphics':
1266s   method         from
1266s   biplot.dudi    ade4
1266s   kplot.foucart  ade4
1266s   kplot.mcoa     ade4
1266s   kplot.mfa      ade4
1266s   kplot.pta      ade4
1266s   kplot.sepan    ade4
1266s   kplot.statis   ade4
1266s   scatter.coa    ade4
1266s   scatter.dudi   ade4
1266s   scatter.nipals ade4
1266s   scatter.pco    ade4
1266s   score.acm      ade4
1266s   score.mix      ade4
1266s   score.pca      ade4
1266s   screeplot.dudi ade4
1266s > library(sp)
1266s > pdf("s.image.pdf")
1266s > 
1266s > ## ex1
1266s > xy <- data.frame(expand.grid(-3:3, -3:3))
1266s > names(xy) <- c("x", "y")
1266s > z <- (1 / sqrt(2)) * exp(-(xy$x ^ 2 + xy$y ^ 2) / 2)
1266s > s.image(xy, z)
1266s > s.image(xy, z, grid = 20)
1266s > s.image(xy, z, grid = 500)
1266s > 
1266s > ## ex2
1266s > Sr1 <- Polygon(cbind(c(0, 1, 2, 1, 2, 0 , -2, -1, -2, -1, 0), c(2.5, 1.5, 2, 0, -2, -1, -2, 0, 2, 1.5, 2.5)))    
1266s > Srs1 <- Polygons(list(Sr1), ID = "stars")        
1266s > SPp1 <- SpatialPolygons(list(Srs1))
1266s > xy1 <- cbind(rnorm(100, 0, 1), rnorm(100, 0, 1.5))
1266s > g1 <- s.image(xy1, runif(100), outsideLimits = SPp1)
1267s > 
1267s > ## ex3
1267s > Sr2 <- Polygon(cbind(c(-0.5, 0.5, 0.5, -0.5, -0.5), c(0, 0, 1 ,1, 0)), hole = TRUE)
1267s > Srs2 <- Polygons(list(Sr1, Sr2), ID = "hole")
1267s > SPp2 <- SpatialPolygons(list(Srs2))
1267s > xy2 <- cbind(c(rnorm(2000, 1, 0.25), rnorm(3000, -1, 1.5)), c(rnorm(2000, 1, 0.5), rnorm(3000, -1, 3)))
1267s > z <- c(rnorm(2000, 12, 1), rnorm(3000, 1, 2))
1267s > g2 <- s.image(xy2, z, outsideLimits = SPp2, grid = 500, xlim = c(-2.5, 2.5), ylim = c(-2, 3))
1267s > 
1267s 
1267s R version 4.5.2 (2025-10-31) -- "[Not] Part in a Rumble"
1267s Copyright (C) 2025 The R Foundation for Statistical Computing
1267s Platform: x86_64-pc-linux-gnu
1267s 
1267s R is free software and comes with ABSOLUTELY NO WARRANTY.
1267s You are welcome to redistribute it under certain conditions.
1267s Type 'license()' or 'licence()' for distribution details.
1267s 
1267s R is a collaborative project with many contributors.
1267s Type 'contributors()' for more information and
1267s 'citation()' on how to cite R or R packages in publications.
1267s 
1267s Type 'demo()' for some demos, 'help()' for on-line help, or
1267s 'help.start()' for an HTML browser interface to help.
1267s Type 'q()' to quit R.
1267s 
1267s > library(adegraphics)
1268s Registered S3 methods overwritten by 'adegraphics':
1268s   method         from
1268s   biplot.dudi    ade4
1268s   kplot.foucart  ade4
1268s   kplot.mcoa     ade4
1268s   kplot.mfa      ade4
1268s   kplot.pta      ade4
1268s   kplot.sepan    ade4
1268s   kplot.statis   ade4
1268s   scatter.coa    ade4
1268s   scatter.dudi   ade4
1268s   scatter.nipals ade4
1268s   scatter.pco    ade4
1268s   score.acm      ade4
1268s   score.mix      ade4
1268s   score.pca      ade4
1268s   screeplot.dudi ade4
1268s > library(grid)
1268s > pdf("s.label.pdf")
1268s > 
1268s > x0 <- runif(50, -2, 2)
1268s > y0 <- runif(50, -2, 2)
1268s > z <- x0 ^ 2 + y0 ^ 2
1268s > dfxy1 <- data.frame(x0, y0)
1268s > g1 <- s.label(dfxy1, label = as.character(z < 1), paxes.draw = TRUE, axis.text = list(col = "grey"))
1268s > g2 <- s.label(dfxy1[1, ])
1268s > g3 <- s.label(dfxy1[1, ], pori.incl = FALSE)
1268s > g4 <- s.label(dfxy1, labels = c("", "MM", "", NA, "ooo"), plabels.optim = TRUE)
1268s > g5 <- s.label(dfxy1, labels = as.character(z < 1), psub = list(text = "Subtitle", col = "blue", position = "topleft"), plabels.col = 1:5, pgrid.text.pos = c(unit(0.95, "npc"), unit(0.94, "npc")))
1268s > 
1268s > dfxy2 <- cbind(dfxy1, runif(50, -5, 5))
1268s > g6 <- s.label(dfxy2, xax = 1, yax = 2:3, paxes.draw = TRUE, paxes.aspectratio = 1.5, plabels.cex = 0.8)
1268s > 
1268s > l <- ls()
1268s > x1 <- runif(length(l))
1268s > x2 <- runif(100)
1268s > y1 <- runif(length(l))
1268s > y2 <- runif(100)
1268s > g7 <- s.label(cbind(x2, y2), labels = as.character((x2 * x2 + y2 * y2) < 1))
1268s > g8 <- s.label(cbind(x1, y1), labels = l, add = TRUE, plabels.col = "blue")
1268s > 
1268s 
1268s R version 4.5.2 (2025-10-31) -- "[Not] Part in a Rumble"
1268s Copyright (C) 2025 The R Foundation for Statistical Computing
1268s Platform: x86_64-pc-linux-gnu
1268s 
1268s R is free software and comes with ABSOLUTELY NO WARRANTY.
1268s You are welcome to redistribute it under certain conditions.
1268s Type 'license()' or 'licence()' for distribution details.
1268s 
1268s R is a collaborative project with many contributors.
1268s Type 'contributors()' for more information and
1268s 'citation()' on how to cite R or R packages in publications.
1268s 
1268s Type 'demo()' for some demos, 'help()' for on-line help, or
1268s 'help.start()' for an HTML browser interface to help.
1268s Type 'q()' to quit R.
1268s 
1268s > library(adegraphics)
1268s Registered S3 methods overwritten by 'adegraphics':
1268s   method         from
1268s   biplot.dudi    ade4
1268s   kplot.foucart  ade4
1268s   kplot.mcoa     ade4
1268s   kplot.mfa      ade4
1268s   kplot.pta      ade4
1268s   kplot.sepan    ade4
1268s   kplot.statis   ade4
1268s   scatter.coa    ade4
1268s   scatter.dudi   ade4
1268s   scatter.nipals ade4
1268s   scatter.pco    ade4
1268s   score.acm      ade4
1268s   score.mix      ade4
1268s   score.pca      ade4
1268s   screeplot.dudi ade4
1268s > pdf("s.logo.pdf")
1269s > 
1269s > ## ex1
1269s > data(ggtortoises, package = "ade4")
1269s > ico <- ggtortoises$ico[as.character(ggtortoises$pop$carap)]
1269s > g1 <- s.logo(ggtortoises$pop, ico, pori.incl = FALSE)
1269s Loading required namespace: pixmap
1269s > g2 <- s.label(ggtortoises$pop, add = TRUE, plabels = list(boxes = list(alpha = 0.4, border = "transparent")))
1269s > 
1269s > ## ex2
1269s > data(capitales, package = "ade4")
1269s > index <- unlist(lapply(1:15, function(i) which(names(capitales$logo) == tolower(rownames(capitales$xy)[i]))), use.names = FALSE)
1269s > g3 <- s.logo(capitales$xy, capitales$logo[index])
1269s > 
1269s > x <- c(0, max(capitales$area$x))
1269s > y <- c(0, max(capitales$area$y))
1269s > #g4 <- s.image(cbind(x, y), z = c(1, 2), outsideLimits = capitales$area, grid = 500, regions = list(col = "yellow", alpha = 0.9))
1269s > #s.logo(capitales$xy, capitales$logo[index], add = TRUE)
1269s > 
1269s 
1269s R version 4.5.2 (2025-10-31) -- "[Not] Part in a Rumble"
1269s Copyright (C) 2025 The R Foundation for Statistical Computing
1269s Platform: x86_64-pc-linux-gnu
1269s 
1269s R is free software and comes with ABSOLUTELY NO WARRANTY.
1269s You are welcome to redistribute it under certain conditions.
1269s Type 'license()' or 'licence()' for distribution details.
1269s 
1269s R is a collaborative project with many contributors.
1269s Type 'contributors()' for more information and
1269s 'citation()' on how to cite R or R packages in publications.
1269s 
1269s Type 'demo()' for some demos, 'help()' for on-line help, or
1269s 'help.start()' for an HTML browser interface to help.
1269s Type 'q()' to quit R.
1269s 
1269s > library(adegraphics)
1269s Registered S3 methods overwritten by 'adegraphics':
1269s   method         from
1269s   biplot.dudi    ade4
1269s   kplot.foucart  ade4
1269s   kplot.mcoa     ade4
1269s   kplot.mfa      ade4
1269s   kplot.pta      ade4
1269s   kplot.sepan    ade4
1269s   kplot.statis   ade4
1269s   scatter.coa    ade4
1269s   scatter.dudi   ade4
1269s   scatter.nipals ade4
1269s   scatter.pco    ade4
1269s   score.acm      ade4
1269s   score.mix      ade4
1269s   score.pca      ade4
1269s   screeplot.dudi ade4
1269s > pdf("s.match.pdf")
1269s > 
1269s > X <- data.frame(x = runif(50, -1, 2), y = runif(50, -1, 2))
1269s > Y <- X + rnorm(100, sd = 0.3)
1269s > 
1269s > g1 <- s.match(X, Y, ppoints.cex = 0, col = c("blue", "red"))
1269s > g2 <- s.match(X, Y, arr = FALSE, ppoints.cex = 2, ppoints.col = c("blue", "green"))
1269s > g3 <- s.match(X, Y, arr = FALSE)
1269s > g4 <- s.match(X, Y, arrows = TRUE, plabels = list(alpha = 1, col = "black", cex = 1), plines = list(col = "red"), panel.background = list(col = "antiquewhite"))
1269s > 
1269s 
1269s R version 4.5.2 (2025-10-31) -- "[Not] Part in a Rumble"
1269s Copyright (C) 2025 The R Foundation for Statistical Computing
1269s Platform: x86_64-pc-linux-gnu
1269s 
1269s R is free software and comes with ABSOLUTELY NO WARRANTY.
1269s You are welcome to redistribute it under certain conditions.
1269s Type 'license()' or 'licence()' for distribution details.
1269s 
1269s R is a collaborative project with many contributors.
1269s Type 'contributors()' for more information and
1269s 'citation()' on how to cite R or R packages in publications.
1269s 
1269s Type 'demo()' for some demos, 'help()' for on-line help, or
1269s 'help.start()' for an HTML browser interface to help.
1269s Type 'q()' to quit R.
1269s 
1269s > library(adegraphics)
1270s Registered S3 methods overwritten by 'adegraphics':
1270s   method         from
1270s   biplot.dudi    ade4
1270s   kplot.foucart  ade4
1270s   kplot.mcoa     ade4
1270s   kplot.mfa      ade4
1270s   kplot.pta      ade4
1270s   kplot.sepan    ade4
1270s   kplot.statis   ade4
1270s   scatter.coa    ade4
1270s   scatter.dudi   ade4
1270s   scatter.nipals ade4
1270s   scatter.pco    ade4
1270s   score.acm      ade4
1270s   score.mix      ade4
1270s   score.pca      ade4
1270s   screeplot.dudi ade4
1270s > pdf("s.traject.pdf")
1270s > 
1270s > rw <- function(a){
1270s +   x <- 0
1270s +   for(i in 1:49)
1270s +     x <- c(x, x[length(x)] + runif(1, -1, 1))
1270s +   x
1270s + }
1270s > 
1270s > x <- unlist(lapply(1:5, rw), use.names = FALSE)
1270s > y <- unlist(lapply(1:5, rw), use.names = FALSE)
1270s > z <- gl(5, 50)
1270s > g1 <- s.traject(data.frame(x, y), z, ppoints.pch = 19:23, plines.col = rainbow(5))
1270s > 
1270s > x <- unlist(lapply(1:2, rw), use.names = FALSE)
1270s > y <- unlist(lapply(1:2, rw), use.names = FALSE)
1270s > z <- gl(2, 50)
1270s > g2 <- s.traject(data.frame(x, y), z, ppoints.pch = 21:20, plines.col = 1:2)
1270s > 
1270s 
1270s R version 4.5.2 (2025-10-31) -- "[Not] Part in a Rumble"
1270s Copyright (C) 2025 The R Foundation for Statistical Computing
1270s Platform: x86_64-pc-linux-gnu
1270s 
1270s R is free software and comes with ABSOLUTELY NO WARRANTY.
1270s You are welcome to redistribute it under certain conditions.
1270s Type 'license()' or 'licence()' for distribution details.
1270s 
1270s R is a collaborative project with many contributors.
1270s Type 'contributors()' for more information and
1270s 'citation()' on how to cite R or R packages in publications.
1270s 
1270s Type 'demo()' for some demos, 'help()' for on-line help, or
1270s 'help.start()' for an HTML browser interface to help.
1270s Type 'q()' to quit R.
1270s 
1270s > library(adegraphics)
1270s Registered S3 methods overwritten by 'adegraphics':
1270s   method         from
1270s   biplot.dudi    ade4
1270s   kplot.foucart  ade4
1270s   kplot.mcoa     ade4
1270s   kplot.mfa      ade4
1270s   kplot.pta      ade4
1270s   kplot.sepan    ade4
1270s   kplot.statis   ade4
1270s   scatter.coa    ade4
1270s   scatter.dudi   ade4
1270s   scatter.nipals ade4
1270s   scatter.pco    ade4
1270s   score.acm      ade4
1270s   score.mix      ade4
1270s   score.pca      ade4
1270s   screeplot.dudi ade4
1270s > pdf("s.value.pdf")
1270s > 
1270s > ## ex1
1270s > xy <- cbind.data.frame(x = runif(50, -1, 1), y = runif(50, 0, 2))
1270s > z <- rnorm(50)
1270s > z <- sapply(z, function(X) max(X, -3))
1270s > z <- sapply(z, function(X) min(X, 3))
1270s > val1 <- s.value(xy, z, method = "size", symbol = "square", plot = F)
1270s > val2 <- s.value(xy, z, method = "color", symbol = "square", plot = F)
1270s > val3 <- s.value(xy, z, method = "size", symbol = "circle", plot = F)
1270s > val4 <- s.value(xy, z, method = "color", symbol = "circle", plot = F)
1270s > g1 <- ADEgS(c(val1, val2, val3, val4), positions = layout2position(matrix(c(1, 2, 3, 4), 2, 2)), add = matrix(0, ncol = 4, nrow = 4))
1271s > g2 <- s.value(xy, z, method = "color", symbol = "square", breaks = c(-3, -1, -0.5, 0, 0.5, 1, 3))
1271s > g3 <- s.value(xy, z, method = "color", col = colorRampPalette(c("yellow", "blue"))(6))
1271s > g4 <- s.value(xy, z, method = "size", symbol = "circle", paxes.draw = FALSE)
1271s > 
1271s > ## ex2
1271s > xx <- runif(100) * 100
1271s > yy <- 1:100 
1271s > zz <- 1:100
1271s > breaks <- c(0, 25, 50, 75, 100)
1271s > g5 <- s.value(data.frame(xx, yy), zz, breaks = breaks, method = "color", paxes.draw = TRUE,  porigin.include = FALSE)
1271s > g6 <- s.value(data.frame(xx, yy), cbind(zz, rev(zz)), breaks = breaks, method = "color", col = c("blue", "red", "green", "yellow"), paxes.draw = TRUE)
1271s > g7 <- s.value(data.frame(xx, yy), cbind(zz, rev(zz)), nclass = c(2, 6), method = "color", col = c("blue", "red", "pink", "green", "yellow"), paxes.draw = TRUE)
1271s > 
1271s > ## ex3
1271s > data(rpjdl, package = "ade4")
1271s > fau.coa <- ade4::dudi.coa(rpjdl$fau, scan = FALSE, nf = 3)
1271s > val5 <- s.value(fau.coa$li, fau.coa$li[,3], plot = FALSE)
1271s > val6 <- s.value(fau.coa$li, fau.coa$li[, 3], center = 0, method = "size", symbol = "circle", col = c("yellow", "red"), plot = FALSE)
1271s > g8 <- ADEgS(c(val5, val6), positions = layout2position(matrix(c(1, 2), 1, 2)), add = matrix(0, ncol = 2, nrow = 2))
1271s > 
1271s > ## ex3
1271s > data(doubs, package = "ade4")
1271s > g9 <- s.value(doubs$xy, doubs$env[, 1:2])
1271s > g10 <- s.value(doubs$xy, doubs$env)
1271s > 
1271s 
1271s R version 4.5.2 (2025-10-31) -- "[Not] Part in a Rumble"
1271s Copyright (C) 2025 The R Foundation for Statistical Computing
1271s Platform: x86_64-pc-linux-gnu
1271s 
1271s R is free software and comes with ABSOLUTELY NO WARRANTY.
1271s You are welcome to redistribute it under certain conditions.
1271s Type 'license()' or 'licence()' for distribution details.
1271s 
1271s R is a collaborative project with many contributors.
1271s Type 'contributors()' for more information and
1271s 'citation()' on how to cite R or R packages in publications.
1271s 
1271s Type 'demo()' for some demos, 'help()' for on-line help, or
1271s 'help.start()' for an HTML browser interface to help.
1271s Type 'q()' to quit R.
1271s 
1271s > library(ade4)
1271s > library(adegraphics)
1272s Registered S3 methods overwritten by 'adegraphics':
1272s   method         from
1272s   biplot.dudi    ade4
1272s   kplot.foucart  ade4
1272s   kplot.mcoa     ade4
1272s   kplot.mfa      ade4
1272s   kplot.pta      ade4
1272s   kplot.sepan    ade4
1272s   kplot.statis   ade4
1272s   scatter.coa    ade4
1272s   scatter.dudi   ade4
1272s   scatter.nipals ade4
1272s   scatter.pco    ade4
1272s   score.acm      ade4
1272s   score.mix      ade4
1272s   score.pca      ade4
1272s   screeplot.dudi ade4
1272s 
1272s Attaching package: 'adegraphics'
1272s 
1272s > pdf("s1d.barchart.pdf")
1272s The following objects are masked from 'package:ade4':
1272s 
1272s     kplotsepan.coa, s.arrow, s.class, s.corcircle, s.distri, s.image,
1272s     s.label, s.logo, s.match, s.traject, s.value, table.value,
1272s     triangle.class
1272s 
1272s > 
1272s > ## 1 : reverse and horizontal
1272s > set.seed(40)
1272s > x1 <- rnorm(10)
1272s > g11 <- s1d.barchart(x1)
1272s > g12 <- s1d.barchart(x1, ppoly.col = "blue")
1272s > 
1272s > g21 <- s1d.barchart(x1, p1d.hori = FALSE, p1d.rev = TRUE)
1272s > g23 <- s1d.barchart(x1, p1d.hori = FALSE, p1d.rev = FALSE)
1272s > g24 <- s1d.barchart(x1, p1d.hori = TRUE, p1d.rev = TRUE)
1272s > g24 <- s1d.barchart(x1, p1d.hori = TRUE, p1d.rev = FALSE)
1272s > 
1272s > ## 2 : at and sort
1272s > data(rpjdl, package = "ade4")
1272s > rpjdl.coa <- ade4::dudi.coa(rpjdl$fau, scannf = FALSE, nf = 4)
1272s > nam <- rownames(rpjdl.coa$co)
1272s > gg1 <- s1d.barchart(rpjdl.coa$co[, 1])
1272s > gg2 <- s1d.barchart(rpjdl.coa$co[, 1], labels = nam, at = 51:1)
1272s > gg3 <- s1d.barchart(rpjdl.coa$co[, 1], labels = nam, sort = TRUE)
1272s > gg4 <- s1d.barchart(rpjdl.coa$co[, 1], labels = nam, sort = TRUE, at = 51:1) # 'at' is ignored
1272s > gg5 <- s1d.barchart(rpjdl.coa$co, labels = nam, sort = TRUE)
1272s > gg6 <- s1d.barchart(rpjdl.coa$co, labels = nam, sort = FALSE)
1272s > stopifnot(gg6[[1]]@data$labels == gg6[[2]]@data$labels)
1272s > 
1272s 
1272s R version 4.5.2 (2025-10-31) -- "[Not] Part in a Rumble"
1272s Copyright (C) 2025 The R Foundation for Statistical Computing
1272s Platform: x86_64-pc-linux-gnu
1272s 
1272s R is free software and comes with ABSOLUTELY NO WARRANTY.
1272s You are welcome to redistribute it under certain conditions.
1272s Type 'license()' or 'licence()' for distribution details.
1272s 
1272s R is a collaborative project with many contributors.
1272s Type 'contributors()' for more information and
1272s 'citation()' on how to cite R or R packages in publications.
1272s 
1272s Type 'demo()' for some demos, 'help()' for on-line help, or
1272s 'help.start()' for an HTML browser interface to help.
1272s Type 'q()' to quit R.
1272s 
1272s > library(adegraphics)
1272s Registered S3 methods overwritten by 'adegraphics':
1272s   method         from
1272s   biplot.dudi    ade4
1272s   kplot.foucart  ade4
1272s   kplot.mcoa     ade4
1272s   kplot.mfa      ade4
1272s   kplot.pta      ade4
1272s   kplot.sepan    ade4
1272s   kplot.statis   ade4
1272s   scatter.coa    ade4
1272s   scatter.dudi   ade4
1272s   scatter.nipals ade4
1272s   scatter.pco    ade4
1272s   score.acm      ade4
1272s   score.mix      ade4
1272s   score.pca      ade4
1272s   screeplot.dudi ade4
1272s > pdf("s1d.boxplot.pdf")
1273s > 
1273s > ## ex1
1273s > x <- c(rnorm(10), rnorm(10))
1273s > fact <- factor(rep(c("A", "B"), 10))
1273s > g11 <- s1d.boxplot(x, fact)
1273s > g12 <- s1d.boxplot(x, fact, col = TRUE)
1273s > g12 <- s1d.boxplot(x, fact, col = 2:3)
1273s > g12 <- s1d.boxplot(x, fact, col = TRUE, plines.col = "black")
1273s > 
1273s > g2 <- s1d.boxplot(x, fact, ppolygon.border = c("red", "blue"), box.rectangle = list(alpha = 1, fill = "green"))
1273s > 
1273s > ## ex2
1273s > w1 <- rnorm(100, -1)
1273s > w2 <- rnorm(100)
1273s > w3 <- rnorm(100, 1)
1273s > f1 <- gl(3, 100)
1273s > f2 <- gl(30, 10)
1273s > g3 <- s1d.boxplot(c(w1, w2, w3), f1)
1273s > g4 <- s1d.boxplot(c(w1, w2, w3), f2)
1273s > g5 <- s1d.boxplot(c(w1, w2, w3), f2, p1d.rug.draw = FALSE)
1273s > 
1273s > mat <- matrix(0, ncol = 1, nrow = 8)
1273s > mat[c(2), ] <- 1
1273s > mat[c(3:8), ] <- 2
1273s > mat[1, ] <- 3
1273s > g6 <- ADEgS(c(g3, g4, s1d.label(c(w1, w2, w3), p1d = list(rug = list(tck = 0.8), rev = TRUE), ppoints.cex = 0, plabels.cex = 0, plot = F, pgrid.draw = F)), 
1273s +   layout = matrix((rev(mat)), ncol = 1))
1273s > g7 <- s1d.boxplot(c(w1, w2, w3), data.frame(f1, f2))
1273s > 
1273s > ## ex3
1273s > data(banque, package = "ade4")
1273s > banque.acm <- ade4::dudi.acm(banque, scan = FALSE, nf = 4)
1273s > s1d.boxplot(banque.acm$l1[, 1], banque[, 1:7], plabels.cex = 1.8)
1273s > 
1273s > 
1273s 
1273s R version 4.5.2 (2025-10-31) -- "[Not] Part in a Rumble"
1273s Copyright (C) 2025 The R Foundation for Statistical Computing
1273s Platform: x86_64-pc-linux-gnu
1273s 
1273s R is free software and comes with ABSOLUTELY NO WARRANTY.
1273s You are welcome to redistribute it under certain conditions.
1273s Type 'license()' or 'licence()' for distribution details.
1273s 
1273s R is a collaborative project with many contributors.
1273s Type 'contributors()' for more information and
1273s 'citation()' on how to cite R or R packages in publications.
1273s 
1273s Type 'demo()' for some demos, 'help()' for on-line help, or
1273s 'help.start()' for an HTML browser interface to help.
1273s Type 'q()' to quit R.
1273s 
1273s > library(adegraphics)
1273s Registered S3 methods overwritten by 'adegraphics':
1273s   method         from
1273s   biplot.dudi    ade4
1273s   kplot.foucart  ade4
1273s   kplot.mcoa     ade4
1273s   kplot.mfa      ade4
1273s   kplot.pta      ade4
1273s   kplot.sepan    ade4
1273s   kplot.statis   ade4
1273s   scatter.coa    ade4
1273s   scatter.dudi   ade4
1273s   scatter.nipals ade4
1273s   scatter.pco    ade4
1273s   score.acm      ade4
1273s   score.mix      ade4
1273s   score.pca      ade4
1273s   screeplot.dudi ade4
1274s > pdf("s1d.class.pdf")
1274s > data(meau, package = "ade4")
1274s > 
1274s > ## ex1
1274s > envpca <- ade4::dudi.pca(meau$env, scannf = FALSE)
1274s > g1 <- s1d.class(envpca$li[, 1], poslab = "value", meau$design$season, col = 1:6)
1274s > update(g1, p1d.horizontal = FALSE)
1274s > update(g1, p1d.reverse = TRUE)
1274s > g2 <- s1d.class(envpca$li[, 1], meau$design$season, col = 1:6, p1d.reverse = TRUE)
1274s > g3 <- s1d.class(envpca$li[, 1], meau$design$season, col = 1:6, p1d.hori = F)
1274s > 
1274s > ## ex2
1274s > set.seed(0)
1274s > score1 <- c(rnorm(3, mean = 0, sd = 0.5), rnorm(3, mean = 1, sd = 0.5), rnorm(5, mean = 2, sd = 0.5))
1274s > factor1 <- factor(rep(LETTERS[1:3], times = c(3, 3, 5)))
1274s > g41 <- s1d.class(score1, factor1)
1274s > g42 <- s1d.class(score1, factor1, col = 1:3)
1274s > g43 <- s1d.class(score1, factor1, col = TRUE)
1274s > g44 <- s1d.class(score1, factor1, col = FALSE)
1274s > g45 <- s1d.class(score1, factor1, plines.col = "grey")
1274s > g46 <- s1d.class(score1, factor1, plines.col = "grey", col = TRUE)
1274s > 
1274s > ## ex3
1274s > score2 <- c(rnorm(10, mean = 0, sd = 0.5), rnorm(15, mean = -1, sd = 0.2), rnorm(10, mean = 2, sd = 0.5))
1274s > factor2 <- factor(rep(c(1, 3, 2), times = c(10, 15, 10)))
1274s > levels(factor2) <- c("mean0", "mean2", "mean-1")
1274s > g5 <- s1d.class(score2, factor2, col = 1:3)
1274s > update(g5, posla = "value")
1274s > 
1274s > indx <- rank(rnorm(35))
1274s > factor2 <- factor2[rank(indx)]
1274s > s1d.class(score2[indx], factor2[indx], col = 1:3, posla = "regular")
1274s > 
1274s > 
1274s 
1274s R version 4.5.2 (2025-10-31) -- "[Not] Part in a Rumble"
1274s Copyright (C) 2025 The R Foundation for Statistical Computing
1274s Platform: x86_64-pc-linux-gnu
1274s 
1274s R is free software and comes with ABSOLUTELY NO WARRANTY.
1274s You are welcome to redistribute it under certain conditions.
1274s Type 'license()' or 'licence()' for distribution details.
1274s 
1274s R is a collaborative project with many contributors.
1274s Type 'contributors()' for more information and
1274s 'citation()' on how to cite R or R packages in publications.
1274s 
1274s Type 'demo()' for some demos, 'help()' for on-line help, or
1274s 'help.start()' for an HTML browser interface to help.
1274s Type 'q()' to quit R.
1274s 
1274s > library(adegraphics)
1274s Registered S3 methods overwritten by 'adegraphics':
1274s   method         from
1274s   biplot.dudi    ade4
1274s   kplot.foucart  ade4
1274s   kplot.mcoa     ade4
1274s   kplot.mfa      ade4
1274s   kplot.pta      ade4
1274s   kplot.sepan    ade4
1274s   kplot.statis   ade4
1274s   scatter.coa    ade4
1274s   scatter.dudi   ade4
1274s   scatter.nipals ade4
1274s   scatter.pco    ade4
1274s   score.acm      ade4
1274s   score.mix      ade4
1274s   score.pca      ade4
1274s   screeplot.dudi ade4
1274s > pdf("s1d.density.pdf")
1274s > 
1274s > set.seed(40)
1274s > x1 <- rnorm(1000)
1274s > g11 <- s1d.density(x1)
1274s > g12 <- s1d.density(x1, col = FALSE, ppoly.col = "blue", p1d.rev = TRUE)
1274s > g13 <- s1d.density(x1, col = TRUE, ppoly.col = "blue", p1d.hori = FALSE)
1275s > g14 <- s1d.density(x1, col = TRUE, p1d.hori = FALSE, p1d.rev = TRUE)
1275s > 
1275s > update(g11, ppolygons.border = "red")
1275s > update(g11, col = FALSE, ppolygons.col = "black")
1275s > update(g11, ppolygons.lwd = 3, ppolygons.lty = 3, ppolygons.alpha = 1)
1275s > update(g11, ylim = c(-0.04, 0.5))
1275s > 
1275s > set.seed(50)
1275s > x2 <- c(rnorm(1000, mean = -0.5, sd = 0.5), rnorm(1000, mean = 1))
1275s > fact <- rep(c("A", "B"), each = 1000)
1275s > g21 <- s1d.density(x2, fact, col = c("red", "blue"))
1275s > g22 <- s1d.density(x2, fact, col = FALSE, ppoly.col = 2:3)
1275s > g23 <- s1d.density(x2, fact, col = FALSE, ppoly.col = 2:3, p1d.rev = TRUE)
1275s > g24 <- s1d.density(x2, fact, col = FALSE, ppoly.col = 2:3, p1d.horizontal = FALSE)
1275s > g25 <- s1d.density(x2, fact, col = FALSE, ppoly.col = 2:3, p1d.horizontal = FALSE, p1d.rev = TRUE)
1275s > 
1275s > set.seed(60)
1275s > x3 <- rnorm(1000)
1275s > g31 <- s1d.density(x3)
1275s > g32 <- s1d.density(x3, p1d.rug.draw = FALSE)
1275s > g33 <- s1d.density(x3, p1d.rug.draw = FALSE, p1d.rev = TRUE)
1275s > g34 <- s1d.density(x3, p1d.rug.draw = FALSE, p1d.hori = FALSE)
1275s > g35 <- s1d.density(x3, p1d.rug.draw = FALSE, p1d.hori = FALSE, p1d.rev = TRUE)
1275s > 
1275s > update(g31, p1d.rev = TRUE)
1275s > update(g32, p1d.rev = TRUE)
1275s > update(g33, p1d.rev = FALSE)
1275s > update(g34, p1d.rev = TRUE)
1275s > update(g35, p1d.rev = FALSE)
1275s > 
1275s > 
1275s 
1275s R version 4.5.2 (2025-10-31) -- "[Not] Part in a Rumble"
1275s Copyright (C) 2025 The R Foundation for Statistical Computing
1275s Platform: x86_64-pc-linux-gnu
1275s 
1275s R is free software and comes with ABSOLUTELY NO WARRANTY.
1275s You are welcome to redistribute it under certain conditions.
1275s Type 'license()' or 'licence()' for distribution details.
1275s 
1275s R is a collaborative project with many contributors.
1275s Type 'contributors()' for more information and
1275s 'citation()' on how to cite R or R packages in publications.
1275s 
1275s Type 'demo()' for some demos, 'help()' for on-line help, or
1275s 'help.start()' for an HTML browser interface to help.
1275s Type 'q()' to quit R.
1275s 
1275s > library(adegraphics)
1275s Registered S3 methods overwritten by 'adegraphics':
1275s   method         from
1275s   biplot.dudi    ade4
1275s   kplot.foucart  ade4
1275s   kplot.mcoa     ade4
1275s   kplot.mfa      ade4
1275s   kplot.pta      ade4
1275s   kplot.sepan    ade4
1275s   kplot.statis   ade4
1275s   scatter.coa    ade4
1275s   scatter.dudi   ade4
1275s   scatter.nipals ade4
1275s   scatter.pco    ade4
1275s   score.acm      ade4
1275s   score.mix      ade4
1275s   score.pca      ade4
1275s   screeplot.dudi ade4
1275s > pdf("s1d.distri.pdf")
1275s > 
1275s > ## ex1
1275s > score <- rnorm(10)
1275s > df <- data.frame(matrix(rep(c(1, 2), 10), ncol = 2))
1275s > g1 <- s1d.distri(score, df)
1275s > 
1275s > ## ex2
1275s > set.seed(1)
1275s > w <- seq(-1, 1, le = 200)
1275s > distri <- data.frame(lapply(1:50, function(x) sample(200:1) * ((w >= (- x / 50)) & (w <= x / 50))))
1275s > names(distri) <- paste("w", 1:50, sep = "")
1275s > g2 <- s1d.distri(w, distri)
1275s > g3 <- s1d.distri(w, distri, yrank = TRUE, sdS = 1.5)
1275s > 
1275s > g4 <- s1d.distri(w, distri, p1d.rug.draw = FALSE)
1276s > g5 <- s1d.distri(w, distri, p1d.reverse = TRUE)
1276s > g6 <- s1d.distri(w, distri, p1d.hori = FALSE)
1276s > g7 <- s1d.distri(w, distri, p1d.hori = FALSE, p1d.reverse = TRUE)
1276s > 
1276s > update(g2, p1d.rug.draw = FALSE)
1276s > update(g5, p1d.rug.draw = FALSE)
1276s > 
1276s 
1276s R version 4.5.2 (2025-10-31) -- "[Not] Part in a Rumble"
1276s Copyright (C) 2025 The R Foundation for Statistical Computing
1276s Platform: x86_64-pc-linux-gnu
1276s 
1276s R is free software and comes with ABSOLUTELY NO WARRANTY.
1276s You are welcome to redistribute it under certain conditions.
1276s Type 'license()' or 'licence()' for distribution details.
1276s 
1276s R is a collaborative project with many contributors.
1276s Type 'contributors()' for more information and
1276s 'citation()' on how to cite R or R packages in publications.
1276s 
1276s Type 'demo()' for some demos, 'help()' for on-line help, or
1276s 'help.start()' for an HTML browser interface to help.
1276s Type 'q()' to quit R.
1276s 
1276s > library(adegraphics)
1276s Registered S3 methods overwritten by 'adegraphics':
1276s   method         from
1276s   biplot.dudi    ade4
1276s   kplot.foucart  ade4
1276s   kplot.mcoa     ade4
1276s   kplot.mfa      ade4
1276s   kplot.pta      ade4
1276s   kplot.sepan    ade4
1276s   kplot.statis   ade4
1276s   scatter.coa    ade4
1276s   scatter.dudi   ade4
1276s   scatter.nipals ade4
1276s   scatter.pco    ade4
1276s   score.acm      ade4
1276s   score.mix      ade4
1276s   score.pca      ade4
1276s   screeplot.dudi ade4
1276s > pdf("s1d.gauss.pdf")
1276s > 
1276s > data(meau, package= "ade4")
1276s > envpca <- ade4::dudi.pca(meau$env, scannf = FALSE)
1276s > dffac <- cbind.data.frame(meau$design$season, meau$design$site)
1276s > g11 <- s1d.gauss(envpca$li[, 1], dffac[, 1])
1276s > g12 <- s1d.gauss(envpca$li[, 1], dffac[, 1], p1d.rev = TRUE)
1276s > g13 <- s1d.gauss(envpca$li[, 1], dffac[, 1], p1d.hori = FALSE)
1276s > g14 <- s1d.gauss(envpca$li[, 1], dffac[, 1], p1d.hori = FALSE, p1d.rev = TRUE)
1276s > 
1276s > g2 <- s1d.gauss(envpca$li[, 1], dffac[, 1], ppoly.col = 1:4, fill = TRUE, plines.col = 1:4, col = FALSE)
1276s > 
1276s > g31 <- s1d.gauss(envpca$li[, 1], dffac[, 2], ppoly.col = 1:4, paxes.draw = TRUE, ylim = c(0, 2), fill = TRUE, p1d.hori = FALSE)
1276s > g32 <- s1d.gauss(envpca$li[, 1], dffac[, 2], ppoly.col = 1:4, paxes.draw = TRUE, fill = TRUE, p1d.hori = FALSE)
1276s > 
1276s > g4 <- s1d.gauss(envpca$li[, 1], fac = dffac, fill = TRUE, col = 1:5)
1276s > g5 <- s1d.gauss(envpca$li[, 1], fac = dffac, fill = TRUE, col = FALSE, ppoly.col = 1:6)
1277s > g6 <- s1d.gauss(envpca$li[, 1], fac = dffac[, 1], fill = TRUE, col = 1:6, ppoly.col = 1:6)
1277s > 
1277s > g7 <- s1d.gauss(envpca$li[, 1], fac = dffac, fill = TRUE, col = 1:6, ppoly.col = 1:6, steps = 10)
1277s > g8 <- s1d.gauss(envpca$li[, 1], dffac[, 2])
1277s > 
1277s > update(g11, p1d.reverse = TRUE)
1277s > update(g12, p1d.reverse = FALSE)
1277s > update(g13, p1d.reverse = TRUE)
1277s > update(g14, p1d.reverse = FALSE)
1277s > 
1277s 
1277s R version 4.5.2 (2025-10-31) -- "[Not] Part in a Rumble"
1277s Copyright (C) 2025 The R Foundation for Statistical Computing
1277s Platform: x86_64-pc-linux-gnu
1277s 
1277s R is free software and comes with ABSOLUTELY NO WARRANTY.
1277s You are welcome to redistribute it under certain conditions.
1277s Type 'license()' or 'licence()' for distribution details.
1277s 
1277s R is a collaborative project with many contributors.
1277s Type 'contributors()' for more information and
1277s 'citation()' on how to cite R or R packages in publications.
1277s 
1277s Type 'demo()' for some demos, 'help()' for on-line help, or
1277s 'help.start()' for an HTML browser interface to help.
1277s Type 'q()' to quit R.
1277s 
1277s > library(ade4)
1277s > library(adegraphics)
1277s Registered S3 methods overwritten by 'adegraphics':
1277s   method         from
1277s   biplot.dudi    ade4
1277s   kplot.foucart  ade4
1277s   kplot.mcoa     ade4
1277s   kplot.mfa      ade4
1277s   kplot.pta      ade4
1277s   kplot.sepan    ade4
1277s   kplot.statis   ade4
1277s   scatter.coa    ade4
1277s   scatter.dudi   ade4
1277s   scatter.nipals ade4
1277s   scatter.pco    ade4
1277s   score.acm      ade4
1277s   score.mix      ade4
1277s   score.pca      ade4
1277s   screeplot.dudi ade4
1277s 
1277s Attaching package: 'adegraphics'
1277s 
1277s > pdf("s1d.hist.pdf")
1277s The following objects are masked from 'package:ade4':
1277s 
1277s     kplotsepan.coa, s.arrow, s.class, s.corcircle, s.distri, s.image,
1277s     s.label, s.logo, s.match, s.traject, s.value, table.value,
1277s     triangle.class
1277s 
1277s > 
1277s > set.seed(40)
1277s > x1 <- rnorm(1000)
1277s > g11 <- s1d.hist(x1)
1277s > g12 <- s1d.hist(x1, col = 1:10)
1277s > g13 <- s1d.hist(x1, col = FALSE, ppoly.col = 1:10)
1277s > g14 <- s1d.hist(x1, col = TRUE, ppoly.col = "blue")
1277s > 
1277s > set.seed(50)
1277s > x1 <- rnorm(1000)
1277s > g21 <- s1d.hist(x1) # p1d.hori = TRUE and p1d.reverse = FALSE by default
1277s > # g22 <- s1d.hist(x1, p1d.hori = TRUE,  p1d.rev = TRUE)
1277s > g23 <- s1d.hist(x1, p1d.hori = FALSE, p1d.rev = FALSE)
1277s > # g24 <- s1d.hist(x1, p1d.hori = FALSE, p1d.rev = TRUE)
1277s > 
1277s > 
1277s > # randtest.pcaiv
1277s > data(rpjdl, package = "ade4")
1277s > millog <- log(rpjdl$mil + 1)
1277s > coa1 <- dudi.coa(rpjdl$fau, scann = FALSE)
1277s > caiv1 <- pcaiv(coa1, millog, scan = FALSE)
1277s > set.seed(50)
1277s > rd11 <- randtest(caiv1)
1277s > plot(rd11)
1277s > set.seed(50)
1277s > rd12 <- randtest(caiv1, output = "full")
1277s > plot(rd12, nclass = 15) # must be the same output as rd11
1278s > set.seed(50)
1278s > rd13 <- randtest(caiv1, output = "full")
1278s > plot(rd13, nclass = 8)
1278s > plot(rd13, nclass = 8, plines.col = "red")
1278s > plot(rd13, nclass = 8, obs.plines.col = "red")
1278s > plot(rd13, nclass = 8, sim.plines.col = "red")
1278s > 
1278s > # randtest.dpcoa
1278s > data(humDNAm, package = "ade4")
1278s > dpcoahum <- dpcoa(data.frame(t(humDNAm$samples)), sqrt(humDNAm$distances), scan = FALSE, nf = 2)
1278s > set.seed(50)
1278s > rd21 <- randtest(dpcoahum)
1278s > plot(rd21)
1278s > rd22 <- randtest(dpcoahum, output = "full")
1278s > plot(rd22)
1278s > 
1278s > # randtest.amova (plot.krandtest)
1278s > amovahum <- amova(humDNAm$samples, sqrt(humDNAm$distances), humDNAm$structures)
1278s > set.seed(50)
1278s > rd31 <- randtest(amovahum, 49)
1278s > plot(rd31)
1278s > plot(rd31, plines.col = "red")
1278s > plot(rd31, g1.plines.col = "red")
1279s > set.seed(50)
1279s > rd32 <- randtest(amovahum, 49, output = "full")
1279s > plot(rd32)
1279s > plot(rd32, plines.col = "red")
1279s > plot(rd32, g1.plines.col = "red")
1279s > plot(rd32, nclass = 30, g2.pback.col = "lightblue")
1279s > 
1279s > # randtest.coinertia
1279s > data(doubs, package = "ade4")
1279s > dudi1 <- dudi.pca(doubs$env, scale = TRUE, scan = FALSE, nf = 3)
1279s > dudi2 <- dudi.pca(doubs$fish, scale = FALSE, scan = FALSE, nf = 2)
1279s > coin1 <- coinertia(dudi1,dudi2, scan = FALSE, nf = 2)
1279s > set.seed(50)
1279s > rd4 <- randtest(coin1)
1279s > plot(rd4)
1279s > 
1279s > # randtest.pcaivortho
1279s > data(rpjdl, package = "ade4")
1279s > millog <- log(rpjdl$mil + 1)
1279s > coa1 <- dudi.coa(rpjdl$fau, scann = FALSE)
1279s > caiv1 <- pcaiv(coa1, millog, scan = FALSE)
1279s > set.seed(50)
1279s > rd5 <- randtest(caiv1)
1279s > plot(rd5)
1279s > 
1279s > # randtest.rlq (plot.krandtest)
1279s > data(aviurba, package = "ade4")
1279s > coa1 <- dudi.coa(aviurba$fau, scannf = FALSE, nf = 2)
1279s > dudimil <- dudi.hillsmith(aviurba$mil, scannf = FALSE, nf = 2, row.w = coa1$lw)
1279s > duditrait <- dudi.hillsmith(aviurba$traits, scannf = FALSE, nf = 2, row.w = coa1$cw)
1279s > rlq1 <- rlq(dudimil, coa1, duditrait, scannf = FALSE, nf = 2)
1279s > set.seed(50)
1279s > rd6 <- randtest(rlq1)
1280s > plot(rd6)
1280s > 
1280s > # randtest.between
1280s > data(meaudret, package = "ade4")
1280s > pca1 <- dudi.pca(meaudret$env, scan = FALSE, nf = 3)
1280s > set.seed(50)
1280s > rd7 <- randtest(bca(pca1, meaudret$design$season, scan = FALSE), 99)
1280s > plot(rd7, main = "Monte-Carlo test")
1280s > 
1280s > # randtest.discrimin
1280s > set.seed(50)
1280s > rd8 <- randtest(discrimin(pca1, meaudret$design$season, scan = FALSE), 99)
1280s > plot(rd8, main = "Monte-Carlo test")
1280s > 
1280s 
1280s R version 4.5.2 (2025-10-31) -- "[Not] Part in a Rumble"
1280s Copyright (C) 2025 The R Foundation for Statistical Computing
1280s Platform: x86_64-pc-linux-gnu
1280s 
1280s R is free software and comes with ABSOLUTELY NO WARRANTY.
1280s You are welcome to redistribute it under certain conditions.
1280s Type 'license()' or 'licence()' for distribution details.
1280s 
1280s R is a collaborative project with many contributors.
1280s Type 'contributors()' for more information and
1280s 'citation()' on how to cite R or R packages in publications.
1280s 
1280s Type 'demo()' for some demos, 'help()' for on-line help, or
1280s 'help.start()' for an HTML browser interface to help.
1280s Type 'q()' to quit R.
1280s 
1280s > library(adegraphics)
1280s Registered S3 methods overwritten by 'adegraphics':
1280s   method         from
1280s   biplot.dudi    ade4
1280s   kplot.foucart  ade4
1280s   kplot.mcoa     ade4
1280s   kplot.mfa      ade4
1280s   kplot.pta      ade4
1280s   kplot.sepan    ade4
1280s   kplot.statis   ade4
1280s   scatter.coa    ade4
1280s   scatter.dudi   ade4
1280s   scatter.nipals ade4
1280s   scatter.pco    ade4
1280s   score.acm      ade4
1280s   score.mix      ade4
1280s   score.pca      ade4
1280s   screeplot.dudi ade4
1280s > pdf("s1d.label.pdf")
1280s > data(meau, package= "ade4")
1280s > 
1280s > envpca <- ade4::dudi.pca(meau$env, scannf = FALSE)
1280s > 
1280s > g1 <- s1d.label(envpca$l1[, 1], row.names(envpca$l1))
1280s > g2 <- s1d.label(envpca$l1[, 1], row.names(envpca$l1), p1d.hori = F)
1280s > g3 <- s1d.label(envpca$l1[, 1], row.names(envpca$l1), plabels.boxes.draw = FALSE, plab.srt = 45, plabel.boxes =  list(draw = FALSE))
1280s > g4 <- s1d.label(envpca$co[, 1], row.names(envpca$co), p1d.reverse = TRUE, poslabel = "value")
1280s > g5 <- s1d.label(envpca$l1[, 1], row.names(envpca$l1), at = 0, plabel.cex = 0)
1280s > 
1280s 
1280s R version 4.5.2 (2025-10-31) -- "[Not] Part in a Rumble"
1280s Copyright (C) 2025 The R Foundation for Statistical Computing
1280s Platform: x86_64-pc-linux-gnu
1280s 
1280s R is free software and comes with ABSOLUTELY NO WARRANTY.
1280s You are welcome to redistribute it under certain conditions.
1280s Type 'license()' or 'licence()' for distribution details.
1280s 
1280s R is a collaborative project with many contributors.
1280s Type 'contributors()' for more information and
1280s 'citation()' on how to cite R or R packages in publications.
1280s 
1280s Type 'demo()' for some demos, 'help()' for on-line help, or
1280s 'help.start()' for an HTML browser interface to help.
1280s Type 'q()' to quit R.
1280s 
1280s > library(adegraphics)
1281s Registered S3 methods overwritten by 'adegraphics':
1281s   method         from
1281s   biplot.dudi    ade4
1281s   kplot.foucart  ade4
1281s   kplot.mcoa     ade4
1281s   kplot.mfa      ade4
1281s   kplot.pta      ade4
1281s   kplot.sepan    ade4
1281s   kplot.statis   ade4
1281s   scatter.coa    ade4
1281s   scatter.dudi   ade4
1281s   scatter.nipals ade4
1281s   scatter.pco    ade4
1281s   score.acm      ade4
1281s   score.mix      ade4
1281s   score.pca      ade4
1281s   screeplot.dudi ade4
1281s > pdf("s1d.match.pdf")
1281s > 
1281s > g1 <- s1d.match(-5:5, 2 * (-5:5))
1281s > g2 <- s1d.match(rnorm(10), runif(10), p1d.hor = FALSE)
1281s > g3 <- s1d.match(1:5, 7:11, p1d.hor = F, p1d.rev = T)
1281s > 
1281s 
1281s R version 4.5.2 (2025-10-31) -- "[Not] Part in a Rumble"
1281s Copyright (C) 2025 The R Foundation for Statistical Computing
1281s Platform: x86_64-pc-linux-gnu
1281s 
1281s R is free software and comes with ABSOLUTELY NO WARRANTY.
1281s You are welcome to redistribute it under certain conditions.
1281s Type 'license()' or 'licence()' for distribution details.
1281s 
1281s R is a collaborative project with many contributors.
1281s Type 'contributors()' for more information and
1281s 'citation()' on how to cite R or R packages in publications.
1281s 
1281s Type 'demo()' for some demos, 'help()' for on-line help, or
1281s 'help.start()' for an HTML browser interface to help.
1281s Type 'q()' to quit R.
1281s 
1281s > library(adegraphics)
1281s Registered S3 methods overwritten by 'adegraphics':
1281s   method         from
1281s   biplot.dudi    ade4
1281s   kplot.foucart  ade4
1281s   kplot.mcoa     ade4
1281s   kplot.mfa      ade4
1281s   kplot.pta      ade4
1281s   kplot.sepan    ade4
1281s   kplot.statis   ade4
1281s   scatter.coa    ade4
1281s   scatter.dudi   ade4
1281s   scatter.nipals ade4
1281s   scatter.pco    ade4
1281s   score.acm      ade4
1281s   score.mix      ade4
1281s   score.pca      ade4
1281s   screeplot.dudi ade4
1281s > pdf("table.image.pdf")
1281s > 
1281s > ## ex1
1281s > x <- 1:4
1281s > y <- 1:4
1281s > df <- data.frame(as.matrix(cbind(x, y)))
1281s > g1 <- table.image(df, col = 2:4)
1281s > update(g1, plegend.drawColorKey = TRUE)
1282s > 
1282s > ## ex2
1282s > df <- matrix(0, 10, 10)
1282s > df[1:3, 1:3] <- 5        
1282s > g2 <- table.image(df)
1282s > g3 <- table.image(df, breaks = c(5, 2, 0))
1282s > 
1282s > ## ex3
1282s > data(rpjdl, package = "ade4")
1282s > X <- data.frame(t(rpjdl$fau))
1282s > Y <- data.frame(t(rpjdl$mil))
1282s > coa1 <- ade4::dudi.coa(X, scan = FALSE)
1282s > x <- rank(coa1$co[, 1])
1282s > y <- rank(coa1$li[, 1])
1282s > g4 <- table.image(Y, coordsx = x, coordsy = 1:8, axis.text = list(alpha = 0), pgrid.col = "black", pgrid.lwd = 0.8, col = c("white", "black"), plegend.drawKey = FALSE)
1282s > g5 <- table.image(X, coordsx = x, coordsy = y, ptable = list(x = list(tck = 0), y = list(tck = 4)), pleg.drawKey = FALSE, labelsy = paste(" ", row.names(X), sep = ""))
1282s > g6 <- ADEgS(list(g4, g5), positions = rbind(c(0, 0, 1, 0.3), c(0, 0.4, 1, 1)))
1282s > 
1282s 
1282s R version 4.5.2 (2025-10-31) -- "[Not] Part in a Rumble"
1282s Copyright (C) 2025 The R Foundation for Statistical Computing
1282s Platform: x86_64-pc-linux-gnu
1282s 
1282s R is free software and comes with ABSOLUTELY NO WARRANTY.
1282s You are welcome to redistribute it under certain conditions.
1282s Type 'license()' or 'licence()' for distribution details.
1282s 
1282s R is a collaborative project with many contributors.
1282s Type 'contributors()' for more information and
1282s 'citation()' on how to cite R or R packages in publications.
1282s 
1282s Type 'demo()' for some demos, 'help()' for on-line help, or
1282s 'help.start()' for an HTML browser interface to help.
1282s Type 'q()' to quit R.
1282s 
1282s > library(adegraphics)
1282s Registered S3 methods overwritten by 'adegraphics':
1282s   method         from
1282s   biplot.dudi    ade4
1282s   kplot.foucart  ade4
1282s   kplot.mcoa     ade4
1282s   kplot.mfa      ade4
1282s   kplot.pta      ade4
1282s   kplot.sepan    ade4
1282s   kplot.statis   ade4
1282s   scatter.coa    ade4
1282s   scatter.dudi   ade4
1282s   scatter.nipals ade4
1282s   scatter.pco    ade4
1282s   score.acm      ade4
1282s   score.mix      ade4
1282s   score.pca      ade4
1282s   screeplot.dudi ade4
1282s > pdf("table.value.pdf")
1282s > 
1282s > 
1282s > ## ex1
1282s > data(olympic, package = "ade4")
1282s > tab1 <- data.frame(scale(olympic$tab))
1282s > pca <- ade4::dudi.pca(tab1, scann = FALSE)
1282s > g1 <- table.value(tab1, axis.line = list(col = "blue"), axis.text = list(col = "grey"))
1282s > g2 <- table.value(tab1, coordsx = c(1:5, 10:6))
1282s > g3 <- table.value(tab1, coordsx = c(1:5, 10:8))
1282s > g4 <- table.value(tab1, coordsy = rank(pca$li[, 1]), coordsx = rank(pca$co[, 1]), method = "color")
1282s > g5 <- table.value(tab1, coordsy = pca$li[, 1], coordsx = pca$co[, 1], ptable = list(x = list(srt = 90)))
1282s > 
1282s > ## ex2
1282s > data(eurodist)
1282s > g61 <- table.value(eurodist)
1282s > g62 <- table.value(eurodist, store = TRUE, symbol = "circle")
1282s > g63 <- table.value(eurodist, store = FALSE, psub.text = "eurodist", psub.position = c(0, -0.04))
1282s > g64 <- table.value(eurodist, ptable.margin = list(b = 17, t = 17, l = 17, r = 17))
1282s > g65 <- table.value(eurodist, ptable.x = list(pos = "bottom"),
1282s +                   ptable.margin = list(b = 17, t = 17, l = 17, r = 17))
1282s > 
1282s > ## ex3
1282s > data("doubs", package = "ade4")
1282s > tab2 <- as.table(as.matrix(doubs$fish))
1282s > g8 <- table.value(tab2)
1282s > 
1282s > ## ex4
1282s > data(chats, package = "ade4")
1282s > tab3 <- as.table(as.matrix(data.frame(t(chats))))
1282s > coa1 <- ade4::dudi.coa(data.frame(t(chats)), scann = FALSE)
1282s > adegparold <- adegpar()
1282s > adegpar(ptable = list(x = list(pos = "bottom", srt = 0), y = list(pos = "left")), plegend.drawKey = FALSE)
1282s > g9 <- table.value(tab3, meanX = TRUE, ablineX = TRUE)
1282s > g10 <- table.value(tab3, meanY = TRUE, ablineY = TRUE) 
1282s > g11 <- table.value(tab3, coordsx = coa1$c1[, 1], coordsy = coa1$l1[, 1], meanX = TRUE, ablineX = TRUE)
1282s > g12 <- table.value(tab3, coordsx = coa1$c1[, 1], coordsy = coa1$l1[, 1], meanY = TRUE, ablineY = TRUE)
1283s > g13 <- ADEgS(list(g9, g10, g11, g12), pos = rbind(c(0, 0.5, 0.5, 1), c(0.5, 0.5, 1, 1), c(0, 0, 0.5, 0.5), c(0.5, 0, 1, 0.5)))
1283s > adegpar(adegparold)
1283s > 
1283s > ## ex5
1283s > data(rpjdl, package = "ade4")
1283s > tab4 <- data.frame(t(rpjdl$fau))
1283s > coa2 <- ade4::dudi.coa(tab4, scann = FALSE)
1283s > g14 <- table.value(tab4, coordsx = coa2$c1[, 1], coordsy = rank(coa2$l1[, 1]), axis.text = list(cex = 0), labelsy = rpjdl$lalab, plot = F)
1283s > 
1283s > ## ex6
1283s > tab5 <- as.table(matrix(rep(0, 100), 10))
1283s > tab5[1:5, 1:5] <- 10
1283s > ade4::table.cont(tab5, abmean.x = T, y = 10:1)
1283s > g15 <- table.value(tab5, coordsy = 10:1, meanX = T)
1283s > g16 <- table.value(tab5, coordsy = 10:1, meanX = T, meanY = TRUE, ablineX = TRUE, ablineY = TRUE)
1283s > 
1283s > ## ex7
1283s > tab6 <- matrix(rep(0, 100), 10)
1283s > tab6[1:5, 1:5] <- 20
1283s > colnames(tab6) <- LETTERS[1:10]
1283s > rownames(tab6) <- LETTERS[1:10]
1283s > ade4::table.value(tab6, x = 1:10, y = 10:1)
1283s > g17 <- table.value(tab6, coordsx = 1:10, coordsy = 10:1)
1283s > g18 <- table.value(tab6, coordsx = 1:10, coordsy = c(1, 2, 5, 6, 8, 9, 10, 3, 4, 7))
1283s > 
1283s > 
1283s > ## ex8
1283s > d <- as.dist(matrix(rep(1:5, 5), 5), upper = TRUE)
1283s > attr(d, "Labels") <- c ("A", "B", "C", "D", "E")
1283s > g4 <- table.value(d)
1283s > 
1283s > ## ex9
1283s > data(irishdata, package = "ade4")
1283s > d.geo <- dist(irishdata$xy.utm)
1283s > g5 <- table.value(d.geo)
1283s > 
1283s 
1283s R version 4.5.2 (2025-10-31) -- "[Not] Part in a Rumble"
1283s Copyright (C) 2025 The R Foundation for Statistical Computing
1283s Platform: x86_64-pc-linux-gnu
1283s 
1283s R is free software and comes with ABSOLUTELY NO WARRANTY.
1283s You are welcome to redistribute it under certain conditions.
1283s Type 'license()' or 'licence()' for distribution details.
1283s 
1283s R is a collaborative project with many contributors.
1283s Type 'contributors()' for more information and
1283s 'citation()' on how to cite R or R packages in publications.
1283s 
1283s Type 'demo()' for some demos, 'help()' for on-line help, or
1283s 'help.start()' for an HTML browser interface to help.
1283s Type 'q()' to quit R.
1283s 
1283s > library(adegraphics)
1283s Registered S3 methods overwritten by 'adegraphics':
1283s   method         from
1283s   biplot.dudi    ade4
1283s   kplot.foucart  ade4
1283s   kplot.mcoa     ade4
1283s   kplot.mfa      ade4
1283s   kplot.pta      ade4
1283s   kplot.sepan    ade4
1283s   kplot.statis   ade4
1283s   scatter.coa    ade4
1283s   scatter.dudi   ade4
1283s   scatter.nipals ade4
1283s   scatter.pco    ade4
1283s   score.acm      ade4
1283s   score.mix      ade4
1283s   score.pca      ade4
1283s   screeplot.dudi ade4
1283s > pdf("triangle.pdf")
1283s > 
1283s > ## ex1
1283s > data(euro123, package = "ade4")
1283s > 
1283s > dfxyz1 <- rbind.data.frame(euro123$in78, euro123$in86, euro123$in97)
1283s > row.names(dfxyz1) <- paste(row.names(euro123$in78), rep(c(1, 2, 3), rep(12, 3)), sep = "")
1283s > g1 <- triangle.label(dfxyz1, label = row.names(dfxyz1))
1283s > g2 <- triangle.label(euro123$in86, label = row.names(euro123$in78), plab.cex = 0.8)
1283s > g3 <- triangle.match(euro123$in78, euro123$in86)
1283s > g4 <- triangle.label(rbind.data.frame(euro123$in78, euro123$in86), plab.cex = 1, addaxes = TRUE, psub = list(text = "Principal axis", cex = 2, pos = "topright"))
1284s > g5 <- triangle.label(euro123[[1]], min3 = c(0, 0.2, 0.3), max3 = c(0.5, 0.7, 0.8), plabels.cex = 1, label = row.names(euro123[[1]]), addax = TRUE)
1284s > g6 <- triangle.label(euro123[[2]], min3 = c(0, 0.2, 0.3), max3 = c(0.5, 0.7, 0.8), label = row.names(euro123[[1]]), addax = TRUE)
1284s > g7 <- triangle.label(euro123[[3]], min3 = c(0, 0.2, 0.3), max3 = c(0.5, 0.7, 0.8), label = row.names(euro123[[1]]), addax = TRUE)
1284s > g8 <- triangle.label(rbind.data.frame(euro123[[1]], euro123[[2]], euro123[[3]]))
1284s > 
1284s > ## ex2
1284s > dfxyz2 <- cbind.data.frame(a = runif(100), b = runif(100), c = runif(100, 4, 5))
1284s > g9 <- triangle.label(dfxyz2)
1284s > 
1284s > ## ex3
1284s > g10 <- triangle.label(dfxyz1)
1284s > g11 <- triangle.class(dfxyz1, as.factor(rep("G", 36)), star = 0.5, ellips = 1)
1284s > g12 <- triangle.class(dfxyz1, euro123$plan$an)
1284s > g13 <- triangle.class(dfxyz1, euro123$plan$pays)
1284s > g14 <- triangle.class(dfxyz1, euro123$plan$an, elli = 1, pell.axe.draw = TRUE)
1284s > g15 <- triangle.class(dfxyz1, euro123$plan$an, elli = 0, sta = 0, col = c("red", "green", "blue"), pell.axe.draw = TRUE, plab.cex = 2, ppoi.cex = 2, pell.axe.draw = TRUE)
1284s > g16 <- triangle.class(dfxyz1, euro123$plan$an, ell = 2, sta = 0.5, pell.axe.draw = TRUE, plab.cex = 1.5)
1284s > g17 <- triangle.class(dfxyz1, euro123$plan$an, ell = 0, sta = 1, adjust = FALSE) 
1284s > g18 <- triangle.class(dfxyz1, euro123$plan$an, ell = 0, sta = 1, chull =c(0.2, 0.25, 0.5, 0.75, 1), adjust = TRUE, showposi = TRUE, col = 10:13, pgrid.draw = FALSE)
1284s > 
1284s autopkgtest [23:45:42]: test run-unit-test: -----------------------]
1285s autopkgtest [23:45:43]: test run-unit-test:  - - - - - - - - - - results - - - - - - - - - -
1285s run-unit-test        PASS
1285s autopkgtest [23:45:43]: test pkg-r-autopkgtest: preparing testbed
1285s Reading package lists...
1286s Building dependency tree...
1286s Reading state information...
1286s Solving dependencies...
1286s The following NEW packages will be installed:
1286s   build-essential cpp cpp-15 cpp-15-x86-64-linux-gnu cpp-x86-64-linux-gnu
1286s   dctrl-tools g++ g++-15 g++-15-x86-64-linux-gnu g++-x86-64-linux-gnu gcc
1286s   gcc-15 gcc-15-x86-64-linux-gnu gcc-x86-64-linux-gnu gfortran gfortran-15
1286s   gfortran-15-x86-64-linux-gnu gfortran-x86-64-linux-gnu icu-devtools libasan8
1286s   libblas-dev libbz2-dev libc-dev-bin libc6-dev libcc1-0 libcrypt-dev
1286s   libdeflate-dev libgcc-15-dev libgfortran-15-dev libhwasan0 libicu-dev
1286s   libisl23 libitm1 libjpeg-dev libjpeg-turbo8-dev libjpeg8-dev liblapack-dev
1286s   liblsan0 liblzma-dev libmpc3 libncurses-dev libpcre2-16-0 libpcre2-32-0
1286s   libpcre2-dev libpcre2-posix3 libpkgconf3 libpng-dev libquadmath0
1286s   libreadline-dev libstdc++-15-dev libtirpc-dev libtsan2 libubsan1 libzstd-dev
1286s   linux-libc-dev pkg-r-autopkgtest pkgconf pkgconf-bin r-base-dev rpcsvc-proto
1286s   zlib1g-dev
1286s 0 upgraded, 61 newly installed, 0 to remove and 0 not upgraded.
1286s Need to get 112 MB of archives.
1286s After this operation, 401 MB of additional disk space will be used.
1286s Get:1 http://ftpmaster.internal/ubuntu resolute/main amd64 libc-dev-bin amd64 2.42-2ubuntu4 [23.3 kB]
1286s Get:2 http://ftpmaster.internal/ubuntu resolute/main amd64 linux-libc-dev amd64 6.19.0-3.3 [1846 kB]
1290s Get:3 http://ftpmaster.internal/ubuntu resolute/main amd64 libcrypt-dev amd64 1:4.5.1-1 [122 kB]
1290s Get:4 http://ftpmaster.internal/ubuntu resolute/main amd64 rpcsvc-proto amd64 1.4.3-1build1 [68.3 kB]
1290s Get:5 http://ftpmaster.internal/ubuntu resolute/main amd64 libc6-dev amd64 2.42-2ubuntu4 [2207 kB]
1297s Get:6 http://ftpmaster.internal/ubuntu resolute/main amd64 libisl23 amd64 0.27-1build1 [691 kB]
1298s Get:7 http://ftpmaster.internal/ubuntu resolute/main amd64 libmpc3 amd64 1.3.1-2 [54.8 kB]
1298s Get:8 http://ftpmaster.internal/ubuntu resolute/main amd64 cpp-15-x86-64-linux-gnu amd64 15.2.0-12ubuntu1 [12.9 MB]
1322s Get:9 http://ftpmaster.internal/ubuntu resolute/main amd64 cpp-15 amd64 15.2.0-12ubuntu1 [1034 B]
1322s Get:10 http://ftpmaster.internal/ubuntu resolute/main amd64 cpp-x86-64-linux-gnu amd64 4:15.2.0-4ubuntu1 [5746 B]
1322s Get:11 http://ftpmaster.internal/ubuntu resolute/main amd64 cpp amd64 4:15.2.0-4ubuntu1 [22.4 kB]
1322s Get:12 http://ftpmaster.internal/ubuntu resolute/main amd64 libcc1-0 amd64 15.2.0-12ubuntu1 [47.4 kB]
1322s Get:13 http://ftpmaster.internal/ubuntu resolute/main amd64 libitm1 amd64 15.2.0-12ubuntu1 [29.5 kB]
1322s Get:14 http://ftpmaster.internal/ubuntu resolute/main amd64 libasan8 amd64 15.2.0-12ubuntu1 [3070 kB]
1330s Get:15 http://ftpmaster.internal/ubuntu resolute/main amd64 liblsan0 amd64 15.2.0-12ubuntu1 [1360 kB]
1333s Get:16 http://ftpmaster.internal/ubuntu resolute/main amd64 libtsan2 amd64 15.2.0-12ubuntu1 [2757 kB]
1338s Get:17 http://ftpmaster.internal/ubuntu resolute/main amd64 libubsan1 amd64 15.2.0-12ubuntu1 [1210 kB]
1341s Get:18 http://ftpmaster.internal/ubuntu resolute/main amd64 libhwasan0 amd64 15.2.0-12ubuntu1 [1685 kB]
1344s Get:19 http://ftpmaster.internal/ubuntu resolute/main amd64 libquadmath0 amd64 15.2.0-12ubuntu1 [153 kB]
1344s Get:20 http://ftpmaster.internal/ubuntu resolute/main amd64 libgcc-15-dev amd64 15.2.0-12ubuntu1 [2866 kB]
1350s Get:21 http://ftpmaster.internal/ubuntu resolute/main amd64 gcc-15-x86-64-linux-gnu amd64 15.2.0-12ubuntu1 [25.4 MB]
1401s Get:22 http://ftpmaster.internal/ubuntu resolute/main amd64 gcc-15 amd64 15.2.0-12ubuntu1 [530 kB]
1402s Get:23 http://ftpmaster.internal/ubuntu resolute/main amd64 gcc-x86-64-linux-gnu amd64 4:15.2.0-4ubuntu1 [1208 B]
1402s Get:24 http://ftpmaster.internal/ubuntu resolute/main amd64 gcc amd64 4:15.2.0-4ubuntu1 [5024 B]
1402s Get:25 http://ftpmaster.internal/ubuntu resolute/main amd64 libstdc++-15-dev amd64 15.2.0-12ubuntu1 [2553 kB]
1408s Get:26 http://ftpmaster.internal/ubuntu resolute/main amd64 g++-15-x86-64-linux-gnu amd64 15.2.0-12ubuntu1 [14.4 MB]
1447s Get:27 http://ftpmaster.internal/ubuntu resolute/main amd64 g++-15 amd64 15.2.0-12ubuntu1 [25.3 kB]
1447s Get:28 http://ftpmaster.internal/ubuntu resolute/main amd64 g++-x86-64-linux-gnu amd64 4:15.2.0-4ubuntu1 [966 B]
1447s Get:29 http://ftpmaster.internal/ubuntu resolute/main amd64 g++ amd64 4:15.2.0-4ubuntu1 [1100 B]
1447s Get:30 http://ftpmaster.internal/ubuntu resolute/main amd64 build-essential amd64 12.12ubuntu2 [5256 B]
1447s Get:31 http://ftpmaster.internal/ubuntu resolute/main amd64 dctrl-tools amd64 2.24-3build4 [104 kB]
1447s Get:32 http://ftpmaster.internal/ubuntu resolute/main amd64 libgfortran-15-dev amd64 15.2.0-12ubuntu1 [973 kB]
1449s Get:33 http://ftpmaster.internal/ubuntu resolute/main amd64 gfortran-15-x86-64-linux-gnu amd64 15.2.0-12ubuntu1 [13.6 MB]
1478s Get:34 http://ftpmaster.internal/ubuntu resolute/main amd64 gfortran-15 amd64 15.2.0-12ubuntu1 [18.1 kB]
1478s Get:35 http://ftpmaster.internal/ubuntu resolute/main amd64 gfortran-x86-64-linux-gnu amd64 4:15.2.0-4ubuntu1 [1014 B]
1478s Get:36 http://ftpmaster.internal/ubuntu resolute/main amd64 gfortran amd64 4:15.2.0-4ubuntu1 [1172 B]
1478s Get:37 http://ftpmaster.internal/ubuntu resolute/main amd64 icu-devtools amd64 78.2-1ubuntu1 [214 kB]
1478s Get:38 http://ftpmaster.internal/ubuntu resolute/main amd64 libblas-dev amd64 3.12.1-7ubuntu1 [235 kB]
1478s Get:39 http://ftpmaster.internal/ubuntu resolute/main amd64 libbz2-dev amd64 1.0.8-6build2 [36.2 kB]
1478s Get:40 http://ftpmaster.internal/ubuntu resolute/main amd64 libdeflate-dev amd64 1.23-2build1 [58.8 kB]
1479s Get:41 http://ftpmaster.internal/ubuntu resolute/main amd64 libicu-dev amd64 78.2-1ubuntu1 [12.5 MB]
1525s Get:42 http://ftpmaster.internal/ubuntu resolute/main amd64 libjpeg-turbo8-dev amd64 2.1.5-4ubuntu3 [300 kB]
1525s Get:43 http://ftpmaster.internal/ubuntu resolute/main amd64 libjpeg8-dev amd64 8c-2ubuntu11 [1484 B]
1525s Get:44 http://ftpmaster.internal/ubuntu resolute/main amd64 libjpeg-dev amd64 8c-2ubuntu11 [1482 B]
1525s Get:45 http://ftpmaster.internal/ubuntu resolute/main amd64 liblapack-dev amd64 3.12.1-7ubuntu1 [5433 kB]
1536s Get:46 http://ftpmaster.internal/ubuntu resolute/main amd64 libncurses-dev amd64 6.6+20251231-1 [389 kB]
1536s Get:47 http://ftpmaster.internal/ubuntu resolute/main amd64 libpcre2-16-0 amd64 10.46-1 [243 kB]
1536s Get:48 http://ftpmaster.internal/ubuntu resolute/main amd64 libpcre2-32-0 amd64 10.46-1 [230 kB]
1536s Get:49 http://ftpmaster.internal/ubuntu resolute/main amd64 libpcre2-posix3 amd64 10.46-1 [7354 B]
1537s Get:50 http://ftpmaster.internal/ubuntu resolute/main amd64 libpcre2-dev amd64 10.46-1 [832 kB]
1538s Get:51 http://ftpmaster.internal/ubuntu resolute/main amd64 libpkgconf3 amd64 1.8.1-4build1 [32.8 kB]
1538s Get:52 http://ftpmaster.internal/ubuntu resolute/main amd64 zlib1g-dev amd64 1:1.3.dfsg+really1.3.1-1ubuntu2 [898 kB]
1540s Get:53 http://ftpmaster.internal/ubuntu resolute/main amd64 libpng-dev amd64 1.6.54-1 [273 kB]
1540s Get:54 http://ftpmaster.internal/ubuntu resolute/main amd64 libreadline-dev amd64 8.3-3 [189 kB]
1540s Get:55 http://ftpmaster.internal/ubuntu resolute/main amd64 libzstd-dev amd64 1.5.7+dfsg-3 [376 kB]
1540s Get:56 http://ftpmaster.internal/ubuntu resolute/main amd64 liblzma-dev amd64 5.8.2-2 [179 kB]
1540s Get:57 http://ftpmaster.internal/ubuntu resolute/main amd64 pkgconf-bin amd64 1.8.1-4build1 [21.7 kB]
1540s Get:58 http://ftpmaster.internal/ubuntu resolute/main amd64 pkgconf amd64 1.8.1-4build1 [16.8 kB]
1540s Get:59 http://ftpmaster.internal/ubuntu resolute/main amd64 libtirpc-dev amd64 1.3.6+ds-1 [195 kB]
1540s Get:60 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-base-dev all 4.5.2-1ubuntu2 [1880 B]
1540s Get:61 http://ftpmaster.internal/ubuntu resolute/universe amd64 pkg-r-autopkgtest all 20250812 [6158 B]
1540s Fetched 112 MB in 4min 14s (439 kB/s)
1540s Selecting previously unselected package libc-dev-bin.
1540s (Reading database ... 
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(Reading database ... 151065 files and directories currently installed.)
1540s Preparing to unpack .../00-libc-dev-bin_2.42-2ubuntu4_amd64.deb ...
1540s Unpacking libc-dev-bin (2.42-2ubuntu4) ...
1540s Selecting previously unselected package linux-libc-dev:amd64.
1540s Preparing to unpack .../01-linux-libc-dev_6.19.0-3.3_amd64.deb ...
1540s Unpacking linux-libc-dev:amd64 (6.19.0-3.3) ...
1540s Selecting previously unselected package libcrypt-dev:amd64.
1540s Preparing to unpack .../02-libcrypt-dev_1%3a4.5.1-1_amd64.deb ...
1540s Unpacking libcrypt-dev:amd64 (1:4.5.1-1) ...
1540s Selecting previously unselected package rpcsvc-proto.
1540s Preparing to unpack .../03-rpcsvc-proto_1.4.3-1build1_amd64.deb ...
1540s Unpacking rpcsvc-proto (1.4.3-1build1) ...
1540s Selecting previously unselected package libc6-dev:amd64.
1540s Preparing to unpack .../04-libc6-dev_2.42-2ubuntu4_amd64.deb ...
1540s Unpacking libc6-dev:amd64 (2.42-2ubuntu4) ...
1540s Selecting previously unselected package libisl23:amd64.
1540s Preparing to unpack .../05-libisl23_0.27-1build1_amd64.deb ...
1540s Unpacking libisl23:amd64 (0.27-1build1) ...
1540s Selecting previously unselected package libmpc3:amd64.
1540s Preparing to unpack .../06-libmpc3_1.3.1-2_amd64.deb ...
1540s Unpacking libmpc3:amd64 (1.3.1-2) ...
1540s Selecting previously unselected package cpp-15-x86-64-linux-gnu.
1540s Preparing to unpack .../07-cpp-15-x86-64-linux-gnu_15.2.0-12ubuntu1_amd64.deb ...
1540s Unpacking cpp-15-x86-64-linux-gnu (15.2.0-12ubuntu1) ...
1540s Selecting previously unselected package cpp-15.
1540s Preparing to unpack .../08-cpp-15_15.2.0-12ubuntu1_amd64.deb ...
1540s Unpacking cpp-15 (15.2.0-12ubuntu1) ...
1540s Selecting previously unselected package cpp-x86-64-linux-gnu.
1540s Preparing to unpack .../09-cpp-x86-64-linux-gnu_4%3a15.2.0-4ubuntu1_amd64.deb ...
1540s Unpacking cpp-x86-64-linux-gnu (4:15.2.0-4ubuntu1) ...
1540s Selecting previously unselected package cpp.
1540s Preparing to unpack .../10-cpp_4%3a15.2.0-4ubuntu1_amd64.deb ...
1540s Unpacking cpp (4:15.2.0-4ubuntu1) ...
1540s Selecting previously unselected package libcc1-0:amd64.
1540s Preparing to unpack .../11-libcc1-0_15.2.0-12ubuntu1_amd64.deb ...
1540s Unpacking libcc1-0:amd64 (15.2.0-12ubuntu1) ...
1540s Selecting previously unselected package libitm1:amd64.
1540s Preparing to unpack .../12-libitm1_15.2.0-12ubuntu1_amd64.deb ...
1540s Unpacking libitm1:amd64 (15.2.0-12ubuntu1) ...
1540s Selecting previously unselected package libasan8:amd64.
1540s Preparing to unpack .../13-libasan8_15.2.0-12ubuntu1_amd64.deb ...
1540s Unpacking libasan8:amd64 (15.2.0-12ubuntu1) ...
1541s Selecting previously unselected package liblsan0:amd64.
1541s Preparing to unpack .../14-liblsan0_15.2.0-12ubuntu1_amd64.deb ...
1541s Unpacking liblsan0:amd64 (15.2.0-12ubuntu1) ...
1541s Selecting previously unselected package libtsan2:amd64.
1541s Preparing to unpack .../15-libtsan2_15.2.0-12ubuntu1_amd64.deb ...
1541s Unpacking libtsan2:amd64 (15.2.0-12ubuntu1) ...
1541s Selecting previously unselected package libubsan1:amd64.
1541s Preparing to unpack .../16-libubsan1_15.2.0-12ubuntu1_amd64.deb ...
1541s Unpacking libubsan1:amd64 (15.2.0-12ubuntu1) ...
1541s Selecting previously unselected package libhwasan0:amd64.
1541s Preparing to unpack .../17-libhwasan0_15.2.0-12ubuntu1_amd64.deb ...
1541s Unpacking libhwasan0:amd64 (15.2.0-12ubuntu1) ...
1541s Selecting previously unselected package libquadmath0:amd64.
1541s Preparing to unpack .../18-libquadmath0_15.2.0-12ubuntu1_amd64.deb ...
1541s Unpacking libquadmath0:amd64 (15.2.0-12ubuntu1) ...
1541s Selecting previously unselected package libgcc-15-dev:amd64.
1541s Preparing to unpack .../19-libgcc-15-dev_15.2.0-12ubuntu1_amd64.deb ...
1541s Unpacking libgcc-15-dev:amd64 (15.2.0-12ubuntu1) ...
1541s Selecting previously unselected package gcc-15-x86-64-linux-gnu.
1541s Preparing to unpack .../20-gcc-15-x86-64-linux-gnu_15.2.0-12ubuntu1_amd64.deb ...
1541s Unpacking gcc-15-x86-64-linux-gnu (15.2.0-12ubuntu1) ...
1541s Selecting previously unselected package gcc-15.
1541s Preparing to unpack .../21-gcc-15_15.2.0-12ubuntu1_amd64.deb ...
1541s Unpacking gcc-15 (15.2.0-12ubuntu1) ...
1541s Selecting previously unselected package gcc-x86-64-linux-gnu.
1541s Preparing to unpack .../22-gcc-x86-64-linux-gnu_4%3a15.2.0-4ubuntu1_amd64.deb ...
1541s Unpacking gcc-x86-64-linux-gnu (4:15.2.0-4ubuntu1) ...
1541s Selecting previously unselected package gcc.
1541s Preparing to unpack .../23-gcc_4%3a15.2.0-4ubuntu1_amd64.deb ...
1541s Unpacking gcc (4:15.2.0-4ubuntu1) ...
1541s Selecting previously unselected package libstdc++-15-dev:amd64.
1541s Preparing to unpack .../24-libstdc++-15-dev_15.2.0-12ubuntu1_amd64.deb ...
1541s Unpacking libstdc++-15-dev:amd64 (15.2.0-12ubuntu1) ...
1541s Selecting previously unselected package g++-15-x86-64-linux-gnu.
1541s Preparing to unpack .../25-g++-15-x86-64-linux-gnu_15.2.0-12ubuntu1_amd64.deb ...
1541s Unpacking g++-15-x86-64-linux-gnu (15.2.0-12ubuntu1) ...
1541s Selecting previously unselected package g++-15.
1541s Preparing to unpack .../26-g++-15_15.2.0-12ubuntu1_amd64.deb ...
1541s Unpacking g++-15 (15.2.0-12ubuntu1) ...
1541s Selecting previously unselected package g++-x86-64-linux-gnu.
1541s Preparing to unpack .../27-g++-x86-64-linux-gnu_4%3a15.2.0-4ubuntu1_amd64.deb ...
1541s Unpacking g++-x86-64-linux-gnu (4:15.2.0-4ubuntu1) ...
1541s Selecting previously unselected package g++.
1541s Preparing to unpack .../28-g++_4%3a15.2.0-4ubuntu1_amd64.deb ...
1541s Unpacking g++ (4:15.2.0-4ubuntu1) ...
1541s Selecting previously unselected package build-essential.
1541s Preparing to unpack .../29-build-essential_12.12ubuntu2_amd64.deb ...
1541s Unpacking build-essential (12.12ubuntu2) ...
1541s Selecting previously unselected package dctrl-tools.
1541s Preparing to unpack .../30-dctrl-tools_2.24-3build4_amd64.deb ...
1541s Unpacking dctrl-tools (2.24-3build4) ...
1541s Selecting previously unselected package libgfortran-15-dev:amd64.
1541s Preparing to unpack .../31-libgfortran-15-dev_15.2.0-12ubuntu1_amd64.deb ...
1541s Unpacking libgfortran-15-dev:amd64 (15.2.0-12ubuntu1) ...
1541s Selecting previously unselected package gfortran-15-x86-64-linux-gnu.
1541s Preparing to unpack .../32-gfortran-15-x86-64-linux-gnu_15.2.0-12ubuntu1_amd64.deb ...
1541s Unpacking gfortran-15-x86-64-linux-gnu (15.2.0-12ubuntu1) ...
1541s Selecting previously unselected package gfortran-15.
1541s Preparing to unpack .../33-gfortran-15_15.2.0-12ubuntu1_amd64.deb ...
1541s Unpacking gfortran-15 (15.2.0-12ubuntu1) ...
1541s Selecting previously unselected package gfortran-x86-64-linux-gnu.
1541s Preparing to unpack .../34-gfortran-x86-64-linux-gnu_4%3a15.2.0-4ubuntu1_amd64.deb ...
1541s Unpacking gfortran-x86-64-linux-gnu (4:15.2.0-4ubuntu1) ...
1541s Selecting previously unselected package gfortran.
1541s Preparing to unpack .../35-gfortran_4%3a15.2.0-4ubuntu1_amd64.deb ...
1541s Unpacking gfortran (4:15.2.0-4ubuntu1) ...
1541s Selecting previously unselected package icu-devtools.
1541s Preparing to unpack .../36-icu-devtools_78.2-1ubuntu1_amd64.deb ...
1541s Unpacking icu-devtools (78.2-1ubuntu1) ...
1541s Selecting previously unselected package libblas-dev:amd64.
1541s Preparing to unpack .../37-libblas-dev_3.12.1-7ubuntu1_amd64.deb ...
1541s Unpacking libblas-dev:amd64 (3.12.1-7ubuntu1) ...
1541s Selecting previously unselected package libbz2-dev:amd64.
1541s Preparing to unpack .../38-libbz2-dev_1.0.8-6build2_amd64.deb ...
1541s Unpacking libbz2-dev:amd64 (1.0.8-6build2) ...
1541s Selecting previously unselected package libdeflate-dev:amd64.
1542s Preparing to unpack .../39-libdeflate-dev_1.23-2build1_amd64.deb ...
1542s Unpacking libdeflate-dev:amd64 (1.23-2build1) ...
1542s Selecting previously unselected package libicu-dev:amd64.
1542s Preparing to unpack .../40-libicu-dev_78.2-1ubuntu1_amd64.deb ...
1542s Unpacking libicu-dev:amd64 (78.2-1ubuntu1) ...
1542s Selecting previously unselected package libjpeg-turbo8-dev:amd64.
1542s Preparing to unpack .../41-libjpeg-turbo8-dev_2.1.5-4ubuntu3_amd64.deb ...
1542s Unpacking libjpeg-turbo8-dev:amd64 (2.1.5-4ubuntu3) ...
1542s Selecting previously unselected package libjpeg8-dev:amd64.
1542s Preparing to unpack .../42-libjpeg8-dev_8c-2ubuntu11_amd64.deb ...
1542s Unpacking libjpeg8-dev:amd64 (8c-2ubuntu11) ...
1542s Selecting previously unselected package libjpeg-dev:amd64.
1542s Preparing to unpack .../43-libjpeg-dev_8c-2ubuntu11_amd64.deb ...
1542s Unpacking libjpeg-dev:amd64 (8c-2ubuntu11) ...
1542s Selecting previously unselected package liblapack-dev:amd64.
1542s Preparing to unpack .../44-liblapack-dev_3.12.1-7ubuntu1_amd64.deb ...
1542s Unpacking liblapack-dev:amd64 (3.12.1-7ubuntu1) ...
1542s Selecting previously unselected package libncurses-dev:amd64.
1542s Preparing to unpack .../45-libncurses-dev_6.6+20251231-1_amd64.deb ...
1542s Unpacking libncurses-dev:amd64 (6.6+20251231-1) ...
1542s Selecting previously unselected package libpcre2-16-0:amd64.
1542s Preparing to unpack .../46-libpcre2-16-0_10.46-1_amd64.deb ...
1542s Unpacking libpcre2-16-0:amd64 (10.46-1) ...
1542s Selecting previously unselected package libpcre2-32-0:amd64.
1542s Preparing to unpack .../47-libpcre2-32-0_10.46-1_amd64.deb ...
1542s Unpacking libpcre2-32-0:amd64 (10.46-1) ...
1542s Selecting previously unselected package libpcre2-posix3:amd64.
1542s Preparing to unpack .../48-libpcre2-posix3_10.46-1_amd64.deb ...
1542s Unpacking libpcre2-posix3:amd64 (10.46-1) ...
1542s Selecting previously unselected package libpcre2-dev:amd64.
1542s Preparing to unpack .../49-libpcre2-dev_10.46-1_amd64.deb ...
1542s Unpacking libpcre2-dev:amd64 (10.46-1) ...
1542s Selecting previously unselected package libpkgconf3:amd64.
1542s Preparing to unpack .../50-libpkgconf3_1.8.1-4build1_amd64.deb ...
1542s Unpacking libpkgconf3:amd64 (1.8.1-4build1) ...
1542s Selecting previously unselected package zlib1g-dev:amd64.
1542s Preparing to unpack .../51-zlib1g-dev_1%3a1.3.dfsg+really1.3.1-1ubuntu2_amd64.deb ...
1542s Unpacking zlib1g-dev:amd64 (1:1.3.dfsg+really1.3.1-1ubuntu2) ...
1542s Selecting previously unselected package libpng-dev:amd64.
1542s Preparing to unpack .../52-libpng-dev_1.6.54-1_amd64.deb ...
1542s Unpacking libpng-dev:amd64 (1.6.54-1) ...
1542s Selecting previously unselected package libreadline-dev:amd64.
1542s Preparing to unpack .../53-libreadline-dev_8.3-3_amd64.deb ...
1542s Unpacking libreadline-dev:amd64 (8.3-3) ...
1542s Selecting previously unselected package libzstd-dev:amd64.
1542s Preparing to unpack .../54-libzstd-dev_1.5.7+dfsg-3_amd64.deb ...
1542s Unpacking libzstd-dev:amd64 (1.5.7+dfsg-3) ...
1542s Selecting previously unselected package liblzma-dev:amd64.
1542s Preparing to unpack .../55-liblzma-dev_5.8.2-2_amd64.deb ...
1542s Unpacking liblzma-dev:amd64 (5.8.2-2) ...
1542s Selecting previously unselected package pkgconf-bin.
1542s Preparing to unpack .../56-pkgconf-bin_1.8.1-4build1_amd64.deb ...
1542s Unpacking pkgconf-bin (1.8.1-4build1) ...
1542s Selecting previously unselected package pkgconf:amd64.
1542s Preparing to unpack .../57-pkgconf_1.8.1-4build1_amd64.deb ...
1542s Unpacking pkgconf:amd64 (1.8.1-4build1) ...
1542s Selecting previously unselected package libtirpc-dev:amd64.
1542s Preparing to unpack .../58-libtirpc-dev_1.3.6+ds-1_amd64.deb ...
1542s Unpacking libtirpc-dev:amd64 (1.3.6+ds-1) ...
1542s Selecting previously unselected package r-base-dev.
1542s Preparing to unpack .../59-r-base-dev_4.5.2-1ubuntu2_all.deb ...
1542s Unpacking r-base-dev (4.5.2-1ubuntu2) ...
1542s Selecting previously unselected package pkg-r-autopkgtest.
1542s Preparing to unpack .../60-pkg-r-autopkgtest_20250812_all.deb ...
1542s Unpacking pkg-r-autopkgtest (20250812) ...
1542s Setting up libzstd-dev:amd64 (1.5.7+dfsg-3) ...
1542s Setting up linux-libc-dev:amd64 (6.19.0-3.3) ...
1542s Setting up libpcre2-16-0:amd64 (10.46-1) ...
1542s Setting up libpcre2-32-0:amd64 (10.46-1) ...
1542s Setting up libtirpc-dev:amd64 (1.3.6+ds-1) ...
1542s Setting up libpkgconf3:amd64 (1.8.1-4build1) ...
1542s Setting up rpcsvc-proto (1.4.3-1build1) ...
1542s Setting up libquadmath0:amd64 (15.2.0-12ubuntu1) ...
1542s Setting up libmpc3:amd64 (1.3.1-2) ...
1542s Setting up icu-devtools (78.2-1ubuntu1) ...
1542s Setting up pkgconf-bin (1.8.1-4build1) ...
1542s Setting up liblzma-dev:amd64 (5.8.2-2) ...
1542s Setting up libubsan1:amd64 (15.2.0-12ubuntu1) ...
1542s Setting up libpcre2-posix3:amd64 (10.46-1) ...
1542s Setting up libhwasan0:amd64 (15.2.0-12ubuntu1) ...
1542s Setting up libcrypt-dev:amd64 (1:4.5.1-1) ...
1542s Setting up libasan8:amd64 (15.2.0-12ubuntu1) ...
1542s Setting up libtsan2:amd64 (15.2.0-12ubuntu1) ...
1542s Setting up libisl23:amd64 (0.27-1build1) ...
1542s Setting up libc-dev-bin (2.42-2ubuntu4) ...
1542s Setting up libdeflate-dev:amd64 (1.23-2build1) ...
1542s Setting up libcc1-0:amd64 (15.2.0-12ubuntu1) ...
1542s Setting up liblsan0:amd64 (15.2.0-12ubuntu1) ...
1542s Setting up libblas-dev:amd64 (3.12.1-7ubuntu1) ...
1542s update-alternatives: using /usr/lib/x86_64-linux-gnu/blas/libblas.so to provide /usr/lib/x86_64-linux-gnu/libblas.so (libblas.so-x86_64-linux-gnu) in auto mode
1542s Setting up dctrl-tools (2.24-3build4) ...
1542s Setting up libitm1:amd64 (15.2.0-12ubuntu1) ...
1542s Setting up libgcc-15-dev:amd64 (15.2.0-12ubuntu1) ...
1542s Setting up cpp-15-x86-64-linux-gnu (15.2.0-12ubuntu1) ...
1542s Setting up libgfortran-15-dev:amd64 (15.2.0-12ubuntu1) ...
1542s Setting up pkgconf:amd64 (1.8.1-4build1) ...
1542s Setting up gcc-15-x86-64-linux-gnu (15.2.0-12ubuntu1) ...
1542s Setting up liblapack-dev:amd64 (3.12.1-7ubuntu1) ...
1542s update-alternatives: using /usr/lib/x86_64-linux-gnu/lapack/liblapack.so to provide /usr/lib/x86_64-linux-gnu/liblapack.so (liblapack.so-x86_64-linux-gnu) in auto mode
1542s Setting up cpp-15 (15.2.0-12ubuntu1) ...
1542s Setting up libc6-dev:amd64 (2.42-2ubuntu4) ...
1542s Setting up libicu-dev:amd64 (78.2-1ubuntu1) ...
1542s Setting up libbz2-dev:amd64 (1.0.8-6build2) ...
1542s Setting up cpp-x86-64-linux-gnu (4:15.2.0-4ubuntu1) ...
1542s Setting up gfortran-15-x86-64-linux-gnu (15.2.0-12ubuntu1) ...
1542s Setting up libjpeg-turbo8-dev:amd64 (2.1.5-4ubuntu3) ...
1542s Setting up libncurses-dev:amd64 (6.6+20251231-1) ...
1542s Setting up libpcre2-dev:amd64 (10.46-1) ...
1542s Setting up gcc-x86-64-linux-gnu (4:15.2.0-4ubuntu1) ...
1542s Setting up libreadline-dev:amd64 (8.3-3) ...
1542s Setting up gfortran-x86-64-linux-gnu (4:15.2.0-4ubuntu1) ...
1542s Setting up gcc-15 (15.2.0-12ubuntu1) ...
1542s Setting up libstdc++-15-dev:amd64 (15.2.0-12ubuntu1) ...
1542s Setting up zlib1g-dev:amd64 (1:1.3.dfsg+really1.3.1-1ubuntu2) ...
1542s Setting up cpp (4:15.2.0-4ubuntu1) ...
1542s Setting up libjpeg8-dev:amd64 (8c-2ubuntu11) ...
1542s Setting up gfortran-15 (15.2.0-12ubuntu1) ...
1542s Setting up g++-15-x86-64-linux-gnu (15.2.0-12ubuntu1) ...
1542s Setting up libpng-dev:amd64 (1.6.54-1) ...
1542s Setting up libjpeg-dev:amd64 (8c-2ubuntu11) ...
1542s Setting up gcc (4:15.2.0-4ubuntu1) ...
1542s Setting up g++-x86-64-linux-gnu (4:15.2.0-4ubuntu1) ...
1542s Setting up g++-15 (15.2.0-12ubuntu1) ...
1542s Setting up gfortran (4:15.2.0-4ubuntu1) ...
1542s update-alternatives: using /usr/bin/gfortran to provide /usr/bin/f95 (f95) in auto mode
1542s update-alternatives: warning: skip creation of /usr/share/man/man1/f95.1.gz because associated file /usr/share/man/man1/gfortran.1.gz (of link group f95) doesn't exist
1542s update-alternatives: using /usr/bin/gfortran to provide /usr/bin/f77 (f77) in auto mode
1542s update-alternatives: warning: skip creation of /usr/share/man/man1/f77.1.gz because associated file /usr/share/man/man1/gfortran.1.gz (of link group f77) doesn't exist
1542s Setting up g++ (4:15.2.0-4ubuntu1) ...
1542s update-alternatives: using /usr/bin/g++ to provide /usr/bin/c++ (c++) in auto mode
1542s Setting up build-essential (12.12ubuntu2) ...
1542s Setting up r-base-dev (4.5.2-1ubuntu2) ...
1542s Setting up pkg-r-autopkgtest (20250812) ...
1542s Processing triggers for libc-bin (2.42-2ubuntu4) ...
1542s Processing triggers for man-db (2.13.1-1build1) ...
1543s Processing triggers for install-info (7.2-5) ...
1544s autopkgtest [23:50:02]: test environment configured for cross building
1544s autopkgtest [23:50:02]: test pkg-r-autopkgtest: /usr/share/dh-r/pkg-r-autopkgtest
1544s autopkgtest [23:50:02]: test pkg-r-autopkgtest: [-----------------------
1544s Test: Try to load the R library adegraphics
1544s 
1544s R version 4.5.2 (2025-10-31) -- "[Not] Part in a Rumble"
1544s Copyright (C) 2025 The R Foundation for Statistical Computing
1544s Platform: x86_64-pc-linux-gnu
1544s 
1544s R is free software and comes with ABSOLUTELY NO WARRANTY.
1544s You are welcome to redistribute it under certain conditions.
1544s Type 'license()' or 'licence()' for distribution details.
1544s 
1544s R is a collaborative project with many contributors.
1544s Type 'contributors()' for more information and
1544s 'citation()' on how to cite R or R packages in publications.
1544s 
1544s Type 'demo()' for some demos, 'help()' for on-line help, or
1544s 'help.start()' for an HTML browser interface to help.
1544s Type 'q()' to quit R.
1544s 
1544s > library('adegraphics')
1545s Registered S3 methods overwritten by 'adegraphics':
1545s   method         from
1545s   biplot.dudi    ade4
1545s   kplot.foucart  ade4
1545s   kplot.mcoa     ade4
1545s   kplot.mfa      ade4
1545s   kplot.pta      ade4
1545s   kplot.sepan    ade4
1545s   kplot.statis   ade4
1545s   scatter.coa    ade4
1545s   scatter.dudi   ade4
1545s   scatter.nipals ade4
1545s   scatter.pco    ade4
1545s   score.acm      ade4
1545s   score.mix      ade4
1545s   score.pca      ade4
1545s   screeplot.dudi ade4
1545s > 
1545s autopkgtest [23:50:03]: test pkg-r-autopkgtest: -----------------------]
1545s autopkgtest [23:50:03]: test pkg-r-autopkgtest:  - - - - - - - - - - results - - - - - - - - - -
1545s pkg-r-autopkgtest    PASS
1546s autopkgtest [23:50:04]: @@@@@@@@@@@@@@@@@@@@ summary
1546s run-unit-test        PASS
1546s pkg-r-autopkgtest    PASS