@platforma-open/milaboratories.run-diff-clonotype-abundance-deseq2-r.software 1.14.1 → 1.15.0
This diff represents the content of publicly available package versions that have been released to one of the supported registries. The information contained in this diff is provided for informational purposes only and reflects changes between package versions as they appear in their respective public registries.
- package/.turbo/turbo-build.log +1903 -1669
- package/CHANGELOG.md +7 -0
- package/dist/artifacts/clonotype-deseq/archive.json +1 -0
- package/dist/artifacts/clonotype-deseq/docker_x64.json +1 -0
- package/dist/artifacts/{main → gene-deseq}/archive.json +1 -1
- package/dist/artifacts/{main → gene-deseq}/docker_x64.json +1 -1
- package/dist/artifacts/prev-checks/archive.json +1 -1
- package/dist/artifacts/prev-checks/docker_x64.json +1 -1
- package/dist/docker/Dockerfile-prev-checks +3 -3
- package/dist/tengo/software/clonotype-deseq.sw.json +1 -0
- package/dist/tengo/software/gene-deseq.sw.json +1 -0
- package/dist/tengo/software/prev-checks.sw.json +1 -1
- package/package.json +32 -8
- package/pkg-platforma-open-milaboratories.run-diff-clonotype-abundance-deseq2-r.software-clonotype-deseq-1.15.0.tgz +0 -0
- package/pkg-platforma-open-milaboratories.run-diff-clonotype-abundance-deseq2-r.software-gene-deseq-1.15.0.tgz +0 -0
- package/pkg-platforma-open-milaboratories.run-diff-clonotype-abundance-deseq2-r.software-prev-checks-1.15.0.tgz +0 -0
- package/src/{deseq2/run_onlyDESeq2.R → deseq2-clonotype/clonotype_deseq2.R} +5 -1
- package/src/deseq2-gene/gene_deseq2.R +244 -0
- package/src/deseq2-gene/renv.lock +996 -0
- package/dist/tengo/software/main.sw.json +0 -1
- package/pkg-platforma-open-milaboratories.run-diff-clonotype-abundance-deseq2-r.software-main-1.14.1.tgz +0 -0
- package/pkg-platforma-open-milaboratories.run-diff-clonotype-abundance-deseq2-r.software-prev-checks-1.14.1.tgz +0 -0
- /package/src/{deseq2 → deseq2-clonotype}/renv.lock +0 -0
package/.turbo/turbo-build.log
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WARN Issue while reading "/home/runner/work/differential-clonotype-abundance/differential-clonotype-abundance/.npmrc". Failed to replace env in config: ${NPMJS_TOKEN}
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> @platforma-open/milaboratories.run-diff-clonotype-abundance-deseq2-r.software@1.
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> @platforma-open/milaboratories.run-diff-clonotype-abundance-deseq2-r.software@1.15.0 build /home/runner/work/differential-clonotype-abundance/differential-clonotype-abundance/software
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#7 4.726 libbz2-dev set to manually installed.
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|
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#7 4.727 libfribidi0 libgio-2.0-dev libgio-2.0-dev-bin libgirepository-2.0-0
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#7 4.727 libgit2-1.9 libglib2.0-0t64 libglib2.0-bin libglib2.0-data libglib2.0-dev
|
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#7 4.727 libglib2.0-dev-bin libgmp-dev libgmp10 libgmpxx4ldbl libgnutls-dane0t64
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#7 4.728 libgnutls-openssl27t64 libgnutls28-dev libgnutls30t64 libgraphite2-3
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#7 4.728 libgraphite2-dev libgsl28 libgslcblas0 libgssapi-krb5-2 libgssrpc4t64
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#7 4.728 libharfbuzz-cairo0 libharfbuzz-gobject0 libharfbuzz-icu0 libharfbuzz-subset0
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#7 4.728 libharfbuzz0b libhogweed6t64 libhttp-parser-dev libhttp-parser2.9 libice-dev
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#7 4.728 libicu-dev libicu76 libidn2-0 libidn2-dev libjbig-dev libjpeg62-turbo
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#7 4.728 libjpeg62-turbo-dev libk5crypto3 libkadm5clnt-mit12 libkadm5srv-mit12
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#7 4.728 libkdb5-10t64 libkrb5-3 libkrb5-dev libkrb5support0 libldap-dev libldap2
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+
#7 4.728 liblerc-dev libltdl7 liblzma5 liblzo2-2 libmariadb-dev libmariadb-dev-compat
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+
#7 4.728 libmariadb3 libmbedcrypto16 libmbedtls-dev libmbedtls21 libmbedx509-7
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#7 4.728 libmount-dev libmount1 libnettle8t64 libnghttp2-14 libnghttp2-dev
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#7 4.728 libnghttp3-9 libnghttp3-dev libngtcp2-16 libngtcp2-crypto-ossl-dev
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#7 4.728 libngtcp2-crypto-ossl0 libngtcp2-dev libodbc2 libodbccr2 libodbcinst2
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119
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#7 4.728 libp11-kit-dev libp11-kit0 libpcre2-16-0 libpcre2-32-0 libpcre2-8-0
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+
#7 4.728 libpcre2-posix3 libpixman-1-0 libpixman-1-dev libpng16-16t64 libpq5
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#7 4.728 libpsl-dev libpython3-stdlib libpython3.13-minimal libpython3.13-stdlib
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#7 4.728 librtmp-dev librtmp1 libsasl2-2 libsasl2-modules-db libselinux1
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123
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+
#7 4.728 libselinux1-dev libsepol-dev libsepol2 libsharpyuv-dev libsm-dev libsm6
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124
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+
#7 4.728 libsmartcols1 libsqlite3-0 libssl3t64 libsysprof-capture-4-dev
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125
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+
#7 4.728 libtasn1-6-dev libtiff-dev libtiff6 libtiffxx6 libunbound8 libuuid1
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#7 4.728 libwebp-dev libwebpdecoder3 libwebpdemux2 libwebpmux3 libx11-6 libx11-data
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#7 4.728 libx11-dev libxau-dev libxcb-render0-dev libxcb-shm0-dev libxcb1-dev
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128
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#7 4.728 libxdmcp-dev libxext-dev libxml2-16 libxrender-dev libxrender1 libzstd-dev
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#7 4.728 libzstd1 locales login mariadb-common media-types mount mysql-common
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#7 4.728 native-architecture netbase nettle-dev openssl openssl-provider-legacy
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131
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+
#7 4.728 python3 python3-minimal python3-packaging python3.13 python3.13-minimal
|
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132
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+
#7 4.728 unixodbc-common util-linux uuid-dev x11proto-dev xorg-sgml-doctools
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133
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+
#7 4.728 xtrans-dev xz-utils
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134
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#7 4.730 Suggested packages:
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135
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+
#7 4.730 doc-base krb5-doc libcairo2-doc libcurl4-doc libidn-dev freetype2-doc
|
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136
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+
#7 4.730 libglib2.0-doc libgdk-pixbuf2.0-bin libxml2-utils gmp-doc libgmp10-doc
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137
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+
#7 4.730 libmpfr-dev dns-root-data gnutls-bin gnutls-doc libgraphite2-utils
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138
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+
#7 4.730 gsl-ref-psdoc | gsl-doc-pdf | gsl-doc-info | gsl-ref-html krb5-user
|
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139
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+
#7 4.730 libice-doc libmbedtls-doc libnghttp2-doc odbc-postgresql tdsodbc p11-kit-doc
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140
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+
#7 4.730 postgresql-doc-18 libpq-oauth libsm-doc sqlite3-doc libssl-doc libx11-doc
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141
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+
#7 4.730 libxcb-doc libxext-doc python3-doc python3-tk python3-venv python3.13-venv
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142
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+
#7 4.730 python3.13-doc binfmt-support
|
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143
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+
#7 4.730 Recommended packages:
|
|
144
|
+
#7 4.730 libtasn1-doc
|
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145
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+
#7 6.752 The following NEW packages will be installed:
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146
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#7 6.753 comerr-dev default-libmysqlclient-dev gir1.2-freedesktop
|
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147
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+
#7 6.753 gir1.2-freedesktop-dev gir1.2-glib-2.0 gir1.2-glib-2.0-dev
|
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148
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+
#7 6.753 gir1.2-harfbuzz-0.0 girepository-tools krb5-multidev libblkid-dev
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149
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+
#7 6.753 libbrotli-dev libcairo-gobject2 libcairo-script-interpreter2 libcairo2-dev
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#7 6.753 libcurl4-openssl-dev libelf1t64 libevent-2.1-7t64 libexpat1-dev libffi-dev
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151
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+
#7 6.753 libfontconfig-dev libfreetype-dev libfribidi-dev libgio-2.0-dev
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152
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#7 6.753 libgio-2.0-dev-bin libgirepository-2.0-0 libgit2-1.9 libgit2-dev
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+
#7 6.753 libglib2.0-bin libglib2.0-data libglib2.0-dev libglib2.0-dev-bin libgmp-dev
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154
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+
#7 6.753 libgmpxx4ldbl libgnutls-dane0t64 libgnutls-openssl27t64 libgnutls28-dev
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155
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+
#7 6.753 libgraphite2-dev libgsl-dev libgsl28 libgslcblas0 libgssrpc4t64
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+
#7 6.753 libharfbuzz-cairo0 libharfbuzz-dev libharfbuzz-gobject0 libharfbuzz-icu0
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157
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#7 6.753 libharfbuzz-subset0 libhttp-parser-dev libhttp-parser2.9 libice-dev libicu76
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158
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#7 6.753 libidn2-dev libjbig-dev libkadm5clnt-mit12 libkadm5srv-mit12 libkdb5-10t64
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159
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#7 6.753 libkrb5-dev libldap-dev liblerc-dev libltdl7 liblzo2-2 libmariadb-dev
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160
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#7 6.753 libmariadb-dev-compat libmariadb3 libmbedcrypto16 libmbedtls-dev
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161
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#7 6.753 libmbedtls21 libmbedx509-7 libmount-dev libnghttp2-dev libnghttp3-dev
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#7 6.754 libngtcp2-16 libngtcp2-crypto-ossl-dev libngtcp2-crypto-ossl0 libngtcp2-dev
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163
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#7 6.754 libodbc2 libodbccr2 libodbcinst2 libp11-kit-dev libpixman-1-dev libpq-dev
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164
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#7 6.754 libpq5 libpsl-dev libpython3-stdlib libpython3.13-minimal
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165
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#7 6.754 libpython3.13-stdlib librtmp-dev libsasl2-dev libselinux1-dev libsepol-dev
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166
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#7 6.754 libsharpyuv-dev libsm-dev libsqlite3-0 libsqlite3-dev libssh2-1-dev
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167
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#7 6.754 libssl-dev libsysprof-capture-4-dev libtasn1-6-dev libtiff-dev libtiff5-dev
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#7 6.754 libtiffxx6 libunbound8 libwebp-dev libwebpdecoder3 libwebpdemux2 libwebpmux3
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#7 6.754 libx11-dev libxau-dev libxcb-render0-dev libxcb-shm0-dev libxcb1-dev
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170
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#7 6.754 libxdmcp-dev libxext-dev libxml2-16 libxml2-dev libxrender-dev libzstd-dev
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#7 6.755 mariadb-common media-types mysql-common native-architecture netbase
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172
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#7 6.755 nettle-dev python3 python3-minimal python3-packaging python3.13
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173
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#7 6.755 python3.13-minimal unixodbc-common unixodbc-dev uuid-dev x11proto-dev
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#7 6.755 xorg-sgml-doctools xtrans-dev
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#7 6.756 The following packages will be upgraded:
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#7 6.756 bsdutils fontconfig fontconfig-config icu-devtools libblkid1 libbrotli1
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177
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#7 6.756 libc-bin libc-dev-bin libc-l10n libc6 libc6-dev libcairo2 libcom-err2
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#7 6.756 libcurl4t64 libexpat1 libffi8 libfontconfig1 libfribidi0 libglib2.0-0t64
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#7 6.757 libgmp10 libgnutls30t64 libgraphite2-3 libgssapi-krb5-2 libharfbuzz0b
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#7 6.757 libhogweed6t64 libicu-dev libidn2-0 libjpeg-dev libjpeg62-turbo
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#7 6.757 libjpeg62-turbo-dev libk5crypto3 libkrb5-3 libkrb5support0 libldap2
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182
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#7 6.757 liblzma-dev liblzma5 libmount1 libnettle8t64 libnghttp2-14 libnghttp3-9
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183
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#7 6.757 libp11-kit0 libpcre2-16-0 libpcre2-32-0 libpcre2-8-0 libpcre2-dev
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#7 6.757 libpcre2-posix3 libpixman-1-0 libpng-dev libpng16-16t64 librtmp1 libsasl2-2
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#7 6.757 libsasl2-modules-db libselinux1 libsepol2 libsm6 libsmartcols1 libssl3t64
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#7 6.757 libtiff6 libuuid1 libx11-6 libx11-data libxrender1 libzstd1 locales login
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#7 6.757 mount openssl openssl-provider-legacy util-linux xz-utils
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#7 6.831 70 upgraded, 133 newly installed, 0 to remove and 146 not upgraded.
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#7 6.831 Need to get 95.2 MB of archives.
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#7 6.831 After this operation, 216 MB of additional disk space will be used.
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#7 6.831 Get:2 http://deb.debian.org/debian testing/main amd64 libxml2-16 amd64 2.14.6+dfsg-0.1 [651 kB]
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#7 6.873 Get:3 http://deb.debian.org/debian testing/main amd64 libxml2-dev amd64 2.14.6+dfsg-0.1 [756 kB]
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#7 6.882 Get:1 http://deb.debian.org/debian sid/main amd64 libc-l10n all 2.41-12 [739 kB]
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#7 6.963 Get:4 http://deb.debian.org/debian sid/main amd64 locales all 2.41-12 [3,924 kB]
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#7 6.987 Get:5 http://deb.debian.org/debian sid/main amd64 libc-dev-bin amd64 2.41-12 [58.2 kB]
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#7 7.228 Get:6 http://deb.debian.org/debian sid/main amd64 libc6-dev amd64 2.41-12 [1,991 kB]
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#7 7.330 Get:7 http://deb.debian.org/debian sid/main amd64 libc6 amd64 2.41-12 [2,846 kB]
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#7 7.473 Get:8 http://deb.debian.org/debian sid/main amd64 libc-bin amd64 2.41-12 [637 kB]
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#7 7.701 Get:9 http://deb.debian.org/debian sid/main amd64 libuuid1 amd64 2.41.2-4 [38.7 kB]
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#7 7.718 Get:10 http://deb.debian.org/debian sid/main amd64 bsdutils amd64 1:2.41.2-4 [93.5 kB]
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#7 7.738 Get:11 http://deb.debian.org/debian sid/main amd64 libblkid1 amd64 2.41.2-4 [174 kB]
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#7 7.869 Get:12 http://deb.debian.org/debian sid/main amd64 libmount1 amd64 2.41.2-4 [211 kB]
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#7 7.950 Get:13 http://deb.debian.org/debian sid/main amd64 libsmartcols1 amd64 2.41.2-4 [145 kB]
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#7 7.970 Get:14 http://deb.debian.org/debian sid/main amd64 util-linux amd64 2.41.2-4 [1,163 kB]
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#7 7.989 Get:15 http://deb.debian.org/debian sid/main amd64 mount amd64 2.41.2-4 [163 kB]
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#7 8.007 Get:16 http://deb.debian.org/debian sid/main amd64 libpcre2-dev amd64 10.46-1 [853 kB]
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#7 8.223 Get:17 http://deb.debian.org/debian sid/main amd64 libpcre2-16-0 amd64 10.46-1 [281 kB]
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#7 8.242 Get:18 http://deb.debian.org/debian sid/main amd64 libpcre2-32-0 amd64 10.46-1 [268 kB]
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#7 8.261 Get:19 http://deb.debian.org/debian sid/main amd64 libpcre2-posix3 amd64 10.46-1 [63.9 kB]
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#7 8.279 Get:20 http://deb.debian.org/debian sid/main amd64 libpcre2-8-0 amd64 10.46-1 [298 kB]
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#7 8.296 Get:21 http://deb.debian.org/debian sid/main amd64 libselinux1 amd64 3.9-2 [85.4 kB]
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#7 8.315 Get:22 http://deb.debian.org/debian sid/main amd64 login amd64 1:4.16.0-2+really2.41.2-4 [105 kB]
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213
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#7 8.430 Get:23 http://deb.debian.org/debian sid/main amd64 libexpat1 amd64 2.7.3-1 [112 kB]
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214
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#7 8.449 Get:24 http://deb.debian.org/debian sid/main amd64 openssl-provider-legacy amd64 3.5.4-1 [308 kB]
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215
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#7 8.466 Get:25 http://deb.debian.org/debian sid/main amd64 libzstd1 amd64 1.5.7+dfsg-2 [308 kB]
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216
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#7 8.484 Get:26 http://deb.debian.org/debian sid/main amd64 libssl3t64 amd64 3.5.4-1 [2,446 kB]
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#7 8.504 Get:27 http://deb.debian.org/debian sid/main amd64 libpython3.13-minimal amd64 3.13.9-1 [865 kB]
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#7 8.522 Get:28 http://deb.debian.org/debian sid/main amd64 python3.13-minimal amd64 3.13.9-1 [2,257 kB]
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#7 8.541 Get:29 http://deb.debian.org/debian sid/main amd64 python3-minimal amd64 3.13.7-1 [27.2 kB]
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#7 8.568 Get:30 http://deb.debian.org/debian sid/main amd64 media-types all 14.0.0 [30.8 kB]
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#7 8.578 Get:31 http://deb.debian.org/debian sid/main amd64 netbase all 6.5 [12.4 kB]
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#7 8.659 Get:32 http://deb.debian.org/debian sid/main amd64 libffi8 amd64 3.5.2-2 [25.5 kB]
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#7 8.677 Get:33 http://deb.debian.org/debian sid/main amd64 liblzma-dev amd64 5.8.1-2 [349 kB]
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#7 8.696 Get:34 http://deb.debian.org/debian sid/main amd64 liblzma5 amd64 5.8.1-2 [310 kB]
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225
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#7 8.777 Get:35 http://deb.debian.org/debian sid/main amd64 libsqlite3-0 amd64 3.46.1-8 [968 kB]
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#7 8.796 Get:36 http://deb.debian.org/debian sid/main amd64 libpython3.13-stdlib amd64 3.13.9-1 [1,965 kB]
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#7 8.818 Get:37 http://deb.debian.org/debian sid/main amd64 python3.13 amd64 3.13.9-1 [764 kB]
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#7 8.837 Get:38 http://deb.debian.org/debian sid/main amd64 libpython3-stdlib amd64 3.13.7-1 [10.2 kB]
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#7 8.856 Get:39 http://deb.debian.org/debian sid/main amd64 python3 amd64 3.13.7-1 [28.3 kB]
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#7 8.875 Get:40 http://deb.debian.org/debian sid/main amd64 libgmp10 amd64 2:6.3.0+dfsg-5 [574 kB]
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231
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#7 8.893 Get:41 http://deb.debian.org/debian sid/main amd64 libnettle8t64 amd64 3.10.2-1 [307 kB]
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232
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#7 8.912 Get:42 http://deb.debian.org/debian sid/main amd64 libhogweed6t64 amd64 3.10.2-1 [336 kB]
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233
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#7 8.931 Get:43 http://deb.debian.org/debian sid/main amd64 xz-utils amd64 5.8.1-2 [660 kB]
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234
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#7 8.953 Get:44 http://deb.debian.org/debian sid/main amd64 libcom-err2 amd64 1.47.2-3+b3 [25.0 kB]
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#7 8.971 Get:45 http://deb.debian.org/debian sid/main amd64 comerr-dev amd64 2.1-1.47.2-3+b3 [56.7 kB]
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236
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#7 8.989 Get:46 http://deb.debian.org/debian sid/main amd64 mysql-common all 5.8+1.1.1 [6,784 B]
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237
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#7 9.008 Get:47 http://deb.debian.org/debian sid/main amd64 mariadb-common all 1:11.8.3-1 [28.8 kB]
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238
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#7 9.027 Get:48 http://deb.debian.org/debian sid/main amd64 libmariadb3 amd64 1:11.8.3-1+b1 [188 kB]
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239
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#7 9.045 Get:49 http://deb.debian.org/debian sid/main amd64 libssl-dev amd64 3.5.4-1 [2,980 kB]
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#7 9.069 Get:50 http://deb.debian.org/debian sid/main amd64 libmariadb-dev amd64 1:11.8.3-1+b1 [277 kB]
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241
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#7 9.083 Get:51 http://deb.debian.org/debian sid/main amd64 libmariadb-dev-compat amd64 1:11.8.3-1+b1 [27.9 kB]
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242
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#7 9.099 Get:52 http://deb.debian.org/debian sid/main amd64 default-libmysqlclient-dev amd64 1.1.1 [3,252 B]
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#7 9.118 Get:53 http://deb.debian.org/debian sid/main amd64 fontconfig-config amd64 2.15.0-2.4 [318 kB]
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#7 9.138 Get:54 http://deb.debian.org/debian sid/main amd64 libfontconfig1 amd64 2.15.0-2.4 [401 kB]
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#7 9.156 Get:55 http://deb.debian.org/debian sid/main amd64 fontconfig amd64 2.15.0-2.4 [464 kB]
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#7 9.174 Get:56 http://deb.debian.org/debian sid/main amd64 libglib2.0-0t64 amd64 2.86.1-1 [1,546 kB]
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#7 9.200 Get:57 http://deb.debian.org/debian sid/main amd64 gir1.2-glib-2.0 amd64 2.86.1-1 [198 kB]
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248
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#7 9.219 Get:58 http://deb.debian.org/debian sid/main amd64 libpixman-1-0 amd64 0.46.4-1 [259 kB]
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249
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#7 9.292 Get:59 http://deb.debian.org/debian sid/main amd64 libpng-dev amd64 1.6.50-1 [366 kB]
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250
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#7 9.386 Get:60 http://deb.debian.org/debian sid/main amd64 libpng16-16t64 amd64 1.6.50-1 [282 kB]
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#7 9.404 Get:61 http://deb.debian.org/debian sid/main amd64 libx11-data all 2:1.8.12-1 [343 kB]
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252
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#7 9.422 Get:62 http://deb.debian.org/debian sid/main amd64 libx11-6 amd64 2:1.8.12-1 [815 kB]
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253
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#7 9.505 Get:63 http://deb.debian.org/debian sid/main amd64 libxrender1 amd64 1:0.9.12-1 [27.9 kB]
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254
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#7 9.525 Get:64 http://deb.debian.org/debian sid/main amd64 libcairo2 amd64 1.18.4-1+b1 [538 kB]
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#7 9.545 Get:65 http://deb.debian.org/debian sid/main amd64 libcairo-gobject2 amd64 1.18.4-1+b1 [130 kB]
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#7 9.562 Get:66 http://deb.debian.org/debian sid/main amd64 gir1.2-freedesktop amd64 1.86.0-6 [61.4 kB]
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257
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#7 9.581 Get:67 http://deb.debian.org/debian sid/main amd64 gir1.2-glib-2.0-dev amd64 2.86.1-1 [920 kB]
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#7 9.599 Get:68 http://deb.debian.org/debian sid/main amd64 gir1.2-freedesktop-dev amd64 1.86.0-6 [52.5 kB]
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259
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#7 9.619 Get:69 http://deb.debian.org/debian sid/main amd64 libgraphite2-3 amd64 1.3.14-11 [76.7 kB]
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260
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#7 9.635 Get:70 http://deb.debian.org/debian sid/main amd64 libharfbuzz0b amd64 12.1.0-1 [530 kB]
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#7 9.654 Get:71 http://deb.debian.org/debian sid/main amd64 libharfbuzz-gobject0 amd64 12.1.0-1 [31.8 kB]
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262
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#7 9.672 Get:72 http://deb.debian.org/debian sid/main amd64 gir1.2-harfbuzz-0.0 amd64 12.1.0-1 [41.7 kB]
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263
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#7 9.690 Get:73 http://deb.debian.org/debian sid/main amd64 native-architecture all 0.2.6 [2,264 B]
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264
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#7 9.709 Get:74 http://deb.debian.org/debian sid/main amd64 libgirepository-2.0-0 amd64 2.86.1-1 [146 kB]
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265
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#7 9.733 Get:75 http://deb.debian.org/debian sid/main amd64 girepository-tools amd64 2.86.1-1 [152 kB]
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266
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#7 9.749 Get:76 http://deb.debian.org/debian sid/main amd64 libicu76 amd64 76.1-4 [9,722 kB]
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267
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#7 9.801 Get:77 http://deb.debian.org/debian sid/main amd64 libicu-dev amd64 76.1-4 [10.8 MB]
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268
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#7 9.849 Get:78 http://deb.debian.org/debian sid/main amd64 icu-devtools amd64 76.1-4 [215 kB]
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269
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#7 9.858 Get:79 http://deb.debian.org/debian sid/main amd64 libgssapi-krb5-2 amd64 1.21.3-5 [138 kB]
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270
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#7 9.859 Get:80 http://deb.debian.org/debian sid/main amd64 libkrb5-3 amd64 1.21.3-5 [326 kB]
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271
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#7 9.906 Get:81 http://deb.debian.org/debian sid/main amd64 libkrb5support0 amd64 1.21.3-5 [33.0 kB]
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272
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#7 9.925 Get:82 http://deb.debian.org/debian sid/main amd64 libk5crypto3 amd64 1.21.3-5 [81.5 kB]
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273
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#7 9.945 Get:83 http://deb.debian.org/debian sid/main amd64 libgssrpc4t64 amd64 1.21.3-5 [60.0 kB]
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#7 9.963 Get:84 http://deb.debian.org/debian sid/main amd64 libkadm5clnt-mit12 amd64 1.21.3-5 [42.5 kB]
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275
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#7 9.982 Get:85 http://deb.debian.org/debian sid/main amd64 libkdb5-10t64 amd64 1.21.3-5 [42.6 kB]
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276
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#7 10.00 Get:86 http://deb.debian.org/debian sid/main amd64 libkadm5srv-mit12 amd64 1.21.3-5 [54.2 kB]
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277
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#7 10.03 Get:87 http://deb.debian.org/debian sid/main amd64 krb5-multidev amd64 1.21.3-5 [126 kB]
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278
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#7 10.04 Get:88 http://deb.debian.org/debian sid/main amd64 uuid-dev amd64 2.41.2-4 [49.9 kB]
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279
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#7 10.06 Get:89 http://deb.debian.org/debian sid/main amd64 libblkid-dev amd64 2.41.2-4 [211 kB]
|
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280
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#7 10.08 Get:90 http://deb.debian.org/debian sid/main amd64 libbrotli1 amd64 1.1.0-2+b7 [307 kB]
|
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281
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#7 10.16 Get:91 http://deb.debian.org/debian sid/main amd64 libbrotli-dev amd64 1.1.0-2+b7 [316 kB]
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282
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#7 10.18 Get:92 http://deb.debian.org/debian sid/main amd64 liblzo2-2 amd64 2.10-3+b1 [55.1 kB]
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283
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#7 10.20 Get:93 http://deb.debian.org/debian sid/main amd64 libcairo-script-interpreter2 amd64 1.18.4-1+b1 [59.3 kB]
|
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284
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#7 10.22 Get:94 http://deb.debian.org/debian sid/main amd64 libexpat1-dev amd64 2.7.3-1 [165 kB]
|
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285
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#7 10.30 Get:95 http://deb.debian.org/debian sid/main amd64 libfreetype-dev amd64 2.13.3+dfsg-1 [622 kB]
|
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286
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#7 10.32 Get:96 http://deb.debian.org/debian sid/main amd64 libfontconfig-dev amd64 2.15.0-2.4 [426 kB]
|
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287
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#7 10.34 Get:97 http://deb.debian.org/debian sid/main amd64 libffi-dev amd64 3.5.2-2 [63.7 kB]
|
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288
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#7 10.36 Get:98 http://deb.debian.org/debian sid/main amd64 libsepol2 amd64 3.9-2 [300 kB]
|
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289
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#7 10.38 Get:99 http://deb.debian.org/debian sid/main amd64 libsepol-dev amd64 3.9-2 [377 kB]
|
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290
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#7 10.40 Get:100 http://deb.debian.org/debian sid/main amd64 libselinux1-dev amd64 3.9-2 [170 kB]
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291
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#7 10.42 Get:101 http://deb.debian.org/debian sid/main amd64 libmount-dev amd64 2.41.2-4 [31.6 kB]
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292
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#7 10.44 Get:102 http://deb.debian.org/debian sid/main amd64 libsysprof-capture-4-dev amd64 49.0-1 [53.4 kB]
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293
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#7 10.46 Get:103 http://deb.debian.org/debian sid/main amd64 libgio-2.0-dev amd64 2.86.1-1 [1,710 kB]
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294
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#7 10.47 Get:104 http://deb.debian.org/debian sid/main amd64 libglib2.0-data all 2.86.1-1 [1,288 kB]
|
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295
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#7 10.50 Get:105 http://deb.debian.org/debian sid/main amd64 libelf1t64 amd64 0.194-1 [185 kB]
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296
|
+
#7 10.51 Get:106 http://deb.debian.org/debian sid/main amd64 libglib2.0-bin amd64 2.86.1-1 [132 kB]
|
|
297
|
+
#7 10.53 Get:107 http://deb.debian.org/debian sid/main amd64 python3-packaging all 25.0-1 [56.6 kB]
|
|
298
|
+
#7 10.55 Get:108 http://deb.debian.org/debian sid/main amd64 libgio-2.0-dev-bin amd64 2.86.1-1 [168 kB]
|
|
299
|
+
#7 10.57 Get:109 http://deb.debian.org/debian sid/main amd64 libglib2.0-dev-bin amd64 2.86.1-1 [56.6 kB]
|
|
300
|
+
#7 10.59 Get:110 http://deb.debian.org/debian sid/main amd64 libglib2.0-dev amd64 2.86.1-1 [57.4 kB]
|
|
301
|
+
#7 10.61 Get:111 http://deb.debian.org/debian sid/main amd64 libpixman-1-dev amd64 0.46.4-1 [11.9 kB]
|
|
302
|
+
#7 10.62 Get:112 http://deb.debian.org/debian sid/main amd64 libsm6 amd64 2:1.2.6-1 [37.3 kB]
|
|
303
|
+
#7 10.64 Get:113 http://deb.debian.org/debian sid/main amd64 xorg-sgml-doctools all 1:1.11-1.1 [22.1 kB]
|
|
304
|
+
#7 10.66 Get:114 http://deb.debian.org/debian sid/main amd64 x11proto-dev all 2024.1-1 [603 kB]
|
|
305
|
+
#7 10.69 Get:115 http://deb.debian.org/debian sid/main amd64 libice-dev amd64 2:1.1.1-1 [73.8 kB]
|
|
306
|
+
#7 10.70 Get:116 http://deb.debian.org/debian sid/main amd64 libsm-dev amd64 2:1.2.6-1 [39.7 kB]
|
|
307
|
+
#7 10.72 Get:117 http://deb.debian.org/debian sid/main amd64 libxau-dev amd64 1:1.0.11-1 [23.6 kB]
|
|
308
|
+
#7 10.74 Get:118 http://deb.debian.org/debian sid/main amd64 libxdmcp-dev amd64 1:1.1.5-1 [44.3 kB]
|
|
309
|
+
#7 10.76 Get:119 http://deb.debian.org/debian sid/main amd64 xtrans-dev all 1.6.0-1 [93.5 kB]
|
|
310
|
+
#7 10.78 Get:120 http://deb.debian.org/debian sid/main amd64 libxcb1-dev amd64 1.17.0-2+b1 [181 kB]
|
|
311
|
+
#7 10.80 Get:121 http://deb.debian.org/debian sid/main amd64 libx11-dev amd64 2:1.8.12-1 [894 kB]
|
|
312
|
+
#7 10.81 Get:122 http://deb.debian.org/debian sid/main amd64 libxcb-render0-dev amd64 1.17.0-2+b1 [118 kB]
|
|
313
|
+
#7 10.83 Get:123 http://deb.debian.org/debian sid/main amd64 libxcb-shm0-dev amd64 1.17.0-2+b1 [108 kB]
|
|
314
|
+
#7 10.85 Get:124 http://deb.debian.org/debian sid/main amd64 libxext-dev amd64 2:1.3.4-1+b3 [104 kB]
|
|
315
|
+
#7 10.87 Get:125 http://deb.debian.org/debian sid/main amd64 libxrender-dev amd64 1:0.9.12-1 [39.0 kB]
|
|
316
|
+
#7 10.89 Get:126 http://deb.debian.org/debian sid/main amd64 libcairo2-dev amd64 1.18.4-1+b1 [43.4 kB]
|
|
317
|
+
#7 10.91 Get:127 http://deb.debian.org/debian sid/main amd64 libnghttp3-9 amd64 1.12.0-1 [68.4 kB]
|
|
318
|
+
#7 10.93 Get:128 http://deb.debian.org/debian sid/main amd64 libngtcp2-16 amd64 1.16.0-1 [136 kB]
|
|
319
|
+
#7 10.95 Get:129 http://deb.debian.org/debian sid/main amd64 libidn2-0 amd64 2.3.8-4 [110 kB]
|
|
320
|
+
#7 10.97 Get:130 http://deb.debian.org/debian sid/main amd64 libsasl2-modules-db amd64 2.1.28+dfsg1-10 [19.8 kB]
|
|
321
|
+
#7 10.99 Get:131 http://deb.debian.org/debian sid/main amd64 libsasl2-2 amd64 2.1.28+dfsg1-10 [57.8 kB]
|
|
322
|
+
#7 11.00 Get:132 http://deb.debian.org/debian sid/main amd64 libldap2 amd64 2.6.10+dfsg-1 [194 kB]
|
|
323
|
+
#7 11.02 Get:133 http://deb.debian.org/debian sid/main amd64 libnghttp2-14 amd64 1.64.0-1.1+b1 [76.2 kB]
|
|
324
|
+
#7 11.04 Get:134 http://deb.debian.org/debian sid/main amd64 libngtcp2-crypto-ossl0 amd64 1.16.0-1 [27.5 kB]
|
|
325
|
+
#7 11.06 Get:135 http://deb.debian.org/debian sid/main amd64 libp11-kit0 amd64 0.25.9-2 [443 kB]
|
|
326
|
+
#7 11.08 Get:136 http://deb.debian.org/debian sid/main amd64 libgnutls30t64 amd64 3.8.10-3 [1,493 kB]
|
|
327
|
+
#7 11.10 Get:137 http://deb.debian.org/debian sid/main amd64 librtmp1 amd64 2.4+20151223.gitfa8646d.1-3 [58.3 kB]
|
|
328
|
+
#7 11.11 Get:138 http://deb.debian.org/debian sid/main amd64 libcurl4t64 amd64 8.17.0~rc3-1 [409 kB]
|
|
329
|
+
#7 11.13 Get:139 http://deb.debian.org/debian sid/main amd64 libidn2-dev amd64 2.3.8-4 [103 kB]
|
|
330
|
+
#7 11.15 Get:140 http://deb.debian.org/debian sid/main amd64 libkrb5-dev amd64 1.21.3-5 [16.1 kB]
|
|
331
|
+
#7 11.17 Get:141 http://deb.debian.org/debian sid/main amd64 libldap-dev amd64 2.6.10+dfsg-1 [312 kB]
|
|
332
|
+
#7 11.19 Get:142 http://deb.debian.org/debian sid/main amd64 libnghttp2-dev amd64 1.64.0-1.1+b1 [117 kB]
|
|
333
|
+
#7 11.21 Get:143 http://deb.debian.org/debian sid/main amd64 libnghttp3-dev amd64 1.12.0-1 [95.5 kB]
|
|
334
|
+
#7 11.24 Get:144 http://deb.debian.org/debian sid/main amd64 libngtcp2-crypto-ossl-dev amd64 1.16.0-1 [28.4 kB]
|
|
335
|
+
#7 11.25 Get:145 http://deb.debian.org/debian sid/main amd64 libngtcp2-dev amd64 1.16.0-1 [193 kB]
|
|
336
|
+
#7 11.26 Get:146 http://deb.debian.org/debian sid/main amd64 libpsl-dev amd64 0.21.2-1.1+b1 [77.6 kB]
|
|
337
|
+
#7 11.28 Get:147 http://deb.debian.org/debian sid/main amd64 libgmpxx4ldbl amd64 2:6.3.0+dfsg-5 [330 kB]
|
|
338
|
+
#7 11.30 Get:148 http://deb.debian.org/debian sid/main amd64 libgmp-dev amd64 2:6.3.0+dfsg-5 [658 kB]
|
|
339
|
+
#7 11.38 Get:149 http://deb.debian.org/debian sid/main amd64 libevent-2.1-7t64 amd64 2.1.12-stable-10+b1 [182 kB]
|
|
340
|
+
#7 11.40 Get:150 http://deb.debian.org/debian sid/main amd64 libunbound8 amd64 1.24.1-2 [614 kB]
|
|
341
|
+
#7 11.48 Get:151 http://deb.debian.org/debian sid/main amd64 libgnutls-dane0t64 amd64 3.8.10-3 [458 kB]
|
|
342
|
+
#7 11.50 Get:152 http://deb.debian.org/debian sid/main amd64 libgnutls-openssl27t64 amd64 3.8.10-3 [458 kB]
|
|
343
|
+
#7 11.52 Get:153 http://deb.debian.org/debian sid/main amd64 libp11-kit-dev amd64 0.25.9-2 [220 kB]
|
|
344
|
+
#7 11.54 Get:154 http://deb.debian.org/debian sid/main amd64 libtasn1-6-dev amd64 4.20.0-2 [99.2 kB]
|
|
345
|
+
#7 11.56 Get:155 http://deb.debian.org/debian sid/main amd64 nettle-dev amd64 3.10.2-1 [1,322 kB]
|
|
346
|
+
#7 11.58 Get:156 http://deb.debian.org/debian sid/main amd64 libgnutls28-dev amd64 3.8.10-3 [1,431 kB]
|
|
347
|
+
#7 11.59 Get:157 http://deb.debian.org/debian sid/main amd64 librtmp-dev amd64 2.4+20151223.gitfa8646d.1-3 [67.9 kB]
|
|
348
|
+
#7 11.61 Get:158 http://deb.debian.org/debian sid/main amd64 libssh2-1-dev amd64 1.11.1-1 [393 kB]
|
|
349
|
+
#7 11.63 Get:159 http://deb.debian.org/debian sid/main amd64 libzstd-dev amd64 1.5.7+dfsg-2 [375 kB]
|
|
350
|
+
#7 11.65 Get:160 http://deb.debian.org/debian sid/main amd64 libcurl4-openssl-dev amd64 8.17.0~rc3-1 [530 kB]
|
|
351
|
+
#7 11.67 Get:161 http://deb.debian.org/debian sid/main amd64 libfribidi0 amd64 1.0.16-3 [26.6 kB]
|
|
352
|
+
#7 11.69 Get:162 http://deb.debian.org/debian sid/main amd64 libfribidi-dev amd64 1.0.16-3 [65.9 kB]
|
|
353
|
+
#7 11.71 Get:163 http://deb.debian.org/debian sid/main amd64 libhttp-parser2.9 amd64 2.9.4-6+b2 [21.2 kB]
|
|
354
|
+
#7 11.73 Get:164 http://deb.debian.org/debian sid/main amd64 libmbedcrypto16 amd64 3.6.4-2 [360 kB]
|
|
355
|
+
#7 11.81 Get:165 http://deb.debian.org/debian sid/main amd64 libmbedx509-7 amd64 3.6.4-2 [151 kB]
|
|
356
|
+
#7 11.84 Get:166 http://deb.debian.org/debian sid/main amd64 libmbedtls21 amd64 3.6.4-2 [242 kB]
|
|
357
|
+
#7 11.85 Get:167 http://deb.debian.org/debian sid/main amd64 libgit2-1.9 amd64 1.9.1+ds-1 [555 kB]
|
|
358
|
+
#7 11.87 Get:168 http://deb.debian.org/debian sid/main amd64 libhttp-parser-dev amd64 2.9.4-6+b2 [20.9 kB]
|
|
359
|
+
#7 11.89 Get:169 http://deb.debian.org/debian sid/main amd64 libmbedtls-dev amd64 3.6.4-2 [834 kB]
|
|
360
|
+
#7 11.91 Get:170 http://deb.debian.org/debian sid/main amd64 libgit2-dev amd64 1.9.1+ds-1 [846 kB]
|
|
361
|
+
#7 11.93 Get:171 http://deb.debian.org/debian sid/main amd64 libgraphite2-dev amd64 1.3.14-11 [20.8 kB]
|
|
362
|
+
#7 11.96 Get:172 http://deb.debian.org/debian sid/main amd64 libgslcblas0 amd64 2.8+dfsg-5.1 [137 kB]
|
|
363
|
+
#7 11.97 Get:173 http://deb.debian.org/debian sid/main amd64 libgsl28 amd64 2.8+dfsg-5.1 [1,068 kB]
|
|
364
|
+
#7 12.05 Get:174 http://deb.debian.org/debian sid/main amd64 libgsl-dev amd64 2.8+dfsg-5.1 [1,336 kB]
|
|
365
|
+
#7 12.07 Get:175 http://deb.debian.org/debian sid/main amd64 libharfbuzz-cairo0 amd64 12.1.0-1 [28.6 kB]
|
|
366
|
+
#7 12.09 Get:176 http://deb.debian.org/debian sid/main amd64 libharfbuzz-icu0 amd64 12.1.0-1 [14.2 kB]
|
|
367
|
+
#7 12.10 Get:177 http://deb.debian.org/debian sid/main amd64 libharfbuzz-subset0 amd64 12.1.0-1 [598 kB]
|
|
368
|
+
#7 12.13 Get:178 http://deb.debian.org/debian sid/main amd64 libharfbuzz-dev amd64 12.1.0-1 [149 kB]
|
|
369
|
+
#7 12.15 Get:179 http://deb.debian.org/debian sid/main amd64 libjbig-dev amd64 2.1-6.1+b2 [31.4 kB]
|
|
370
|
+
#7 12.16 Get:180 http://deb.debian.org/debian sid/main amd64 libjpeg62-turbo-dev amd64 1:2.1.5-4 [292 kB]
|
|
371
|
+
#7 12.18 Get:181 http://deb.debian.org/debian sid/main amd64 libjpeg62-turbo amd64 1:2.1.5-4 [168 kB]
|
|
372
|
+
#7 12.20 Get:182 http://deb.debian.org/debian sid/main amd64 libjpeg-dev amd64 1:2.1.5-4 [72.2 kB]
|
|
373
|
+
#7 12.22 Get:183 http://deb.debian.org/debian sid/main amd64 liblerc-dev amd64 4.0.0+ds-5 [183 kB]
|
|
374
|
+
#7 12.24 Get:184 http://deb.debian.org/debian sid/main amd64 libltdl7 amd64 2.5.4-7 [416 kB]
|
|
375
|
+
#7 12.26 Get:185 http://deb.debian.org/debian sid/main amd64 libodbc2 amd64 2.3.12-2+b1 [152 kB]
|
|
376
|
+
#7 12.28 Get:186 http://deb.debian.org/debian sid/main amd64 libodbccr2 amd64 2.3.12-2+b1 [18.4 kB]
|
|
377
|
+
#7 12.29 Get:187 http://deb.debian.org/debian sid/main amd64 unixodbc-common all 2.3.12-2 [8,640 B]
|
|
378
|
+
#7 12.31 Get:188 http://deb.debian.org/debian sid/main amd64 libodbcinst2 amd64 2.3.12-2+b1 [35.4 kB]
|
|
379
|
+
#7 12.33 Get:189 http://deb.debian.org/debian sid/main amd64 libpq5 amd64 18.0-1 [251 kB]
|
|
380
|
+
#7 12.35 Get:190 http://deb.debian.org/debian sid/main amd64 libpq-dev amd64 18.0-1 [163 kB]
|
|
381
|
+
#7 12.37 Get:191 http://deb.debian.org/debian sid/main amd64 libsasl2-dev amd64 2.1.28+dfsg1-10 [235 kB]
|
|
382
|
+
#7 12.39 Get:192 http://deb.debian.org/debian sid/main amd64 libsharpyuv-dev amd64 1.5.0-0.1 [120 kB]
|
|
383
|
+
#7 12.40 Get:193 http://deb.debian.org/debian sid/main amd64 libsqlite3-dev amd64 3.46.1-8 [1,172 kB]
|
|
384
|
+
#7 12.42 Get:194 http://deb.debian.org/debian sid/main amd64 libwebpdemux2 amd64 1.5.0-0.1 [113 kB]
|
|
385
|
+
#7 12.44 Get:195 http://deb.debian.org/debian sid/main amd64 libwebpmux3 amd64 1.5.0-0.1 [126 kB]
|
|
386
|
+
#7 12.52 Get:196 http://deb.debian.org/debian sid/main amd64 libwebpdecoder3 amd64 1.5.0-0.1 [208 kB]
|
|
387
|
+
#7 12.54 Get:197 http://deb.debian.org/debian sid/main amd64 libwebp-dev amd64 1.5.0-0.1 [450 kB]
|
|
388
|
+
#7 12.56 Get:198 http://deb.debian.org/debian sid/main amd64 libtiff6 amd64 4.7.1-1 [361 kB]
|
|
389
|
+
#7 12.58 Get:199 http://deb.debian.org/debian sid/main amd64 libtiffxx6 amd64 4.7.1-1 [174 kB]
|
|
390
|
+
#7 12.61 Get:200 http://deb.debian.org/debian sid/main amd64 libtiff-dev amd64 4.7.1-1 [504 kB]
|
|
391
|
+
#7 12.62 Get:201 http://deb.debian.org/debian sid/main amd64 libtiff5-dev amd64 4.7.1-1 [171 kB]
|
|
392
|
+
#7 12.64 Get:202 http://deb.debian.org/debian sid/main amd64 openssl amd64 3.5.4-1 [1,496 kB]
|
|
393
|
+
#7 12.66 Get:203 http://deb.debian.org/debian sid/main amd64 unixodbc-dev amd64 2.3.12-2+b1 [234 kB]
|
|
394
|
+
#7 12.91 debconf: unable to initialize frontend: Dialog
|
|
395
|
+
#7 12.91 debconf: (TERM is not set, so the dialog frontend is not usable.)
|
|
396
|
+
#7 12.91 debconf: falling back to frontend: Readline
|
|
397
|
+
#7 12.92 debconf: unable to initialize frontend: Readline
|
|
398
|
+
#7 12.92 debconf: (This frontend requires a controlling tty.)
|
|
399
|
+
#7 12.92 debconf: falling back to frontend: Teletype
|
|
400
|
+
#7 12.93 dpkg-preconfigure: unable to re-open stdin:
|
|
401
|
+
#7 12.98 Fetched 95.2 MB in 6s (16.2 MB/s)
|
|
402
|
+
#7 13.01 (Reading database ...
|
|
403
|
+
#7 13.03 Preparing to unpack .../libc-l10n_2.41-12_all.deb ...
|
|
404
|
+
#7 13.04 Unpacking libc-l10n (2.41-12) over (2.40-7) ...
|
|
405
|
+
#7 13.28 Preparing to unpack .../locales_2.41-12_all.deb ...
|
|
406
|
+
#7 13.28 Unpacking locales (2.41-12) over (2.40-7) ...
|
|
407
|
+
#7 14.18 Preparing to unpack .../libc-dev-bin_2.41-12_amd64.deb ...
|
|
408
|
+
#7 14.18 Unpacking libc-dev-bin (2.41-12) over (2.40-7) ...
|
|
409
|
+
#7 14.21 Preparing to unpack .../libc6-dev_2.41-12_amd64.deb ...
|
|
410
|
+
#7 14.22 Unpacking libc6-dev:amd64 (2.41-12) over (2.40-7) ...
|
|
411
|
+
#7 14.80 Preparing to unpack .../libc6_2.41-12_amd64.deb ...
|
|
412
|
+
#7 14.87 debconf: unable to initialize frontend: Dialog
|
|
413
|
+
#7 14.87 debconf: (TERM is not set, so the dialog frontend is not usable.)
|
|
414
|
+
#7 14.87 debconf: falling back to frontend: Readline
|
|
415
|
+
#7 14.88 debconf: unable to initialize frontend: Readline
|
|
416
|
+
#7 14.88 debconf: (This frontend requires a controlling tty.)
|
|
417
|
+
#7 14.88 debconf: falling back to frontend: Teletype
|
|
418
|
+
#7 14.90 Checking for services that may need to be restarted...
|
|
419
|
+
#7 14.91 Checking init scripts...
|
|
420
|
+
#7 14.95 Unpacking libc6:amd64 (2.41-12) over (2.40-7) ...
|
|
421
|
+
#7 15.30 Setting up libc6:amd64 (2.41-12) ...
|
|
422
|
+
#7 15.37 debconf: unable to initialize frontend: Dialog
|
|
423
|
+
#7 15.37 debconf: (TERM is not set, so the dialog frontend is not usable.)
|
|
424
|
+
#7 15.37 debconf: falling back to frontend: Readline
|
|
425
|
+
#7 15.38 debconf: unable to initialize frontend: Readline
|
|
426
|
+
#7 15.38 debconf: (This frontend requires a controlling tty.)
|
|
427
|
+
#7 15.38 debconf: falling back to frontend: Teletype
|
|
428
|
+
#7 15.39 Checking for services that may need to be restarted...
|
|
429
|
+
#7 15.40 Checking init scripts...
|
|
430
|
+
#7 15.40 Nothing to restart.
|
|
431
|
+
#7 15.44 (Reading database ...
|
|
432
|
+
#7 15.45 Preparing to unpack .../libc-bin_2.41-12_amd64.deb ...
|
|
433
|
+
#7 15.46 Unpacking libc-bin (2.41-12) over (2.40-7) ...
|
|
434
|
+
#7 15.52 Setting up libc-bin (2.41-12) ...
|
|
435
|
+
#7 15.57 (Reading database ...
|
|
436
|
+
#7 15.58 Preparing to unpack .../libuuid1_2.41.2-4_amd64.deb ...
|
|
437
|
+
#7 15.59 Unpacking libuuid1:amd64 (2.41.2-4) over (2.40.4-3) ...
|
|
438
|
+
#7 15.61 Setting up libuuid1:amd64 (2.41.2-4) ...
|
|
439
|
+
#7 15.63 (Reading database ...
|
|
440
|
+
#7 15.64 Preparing to unpack .../bsdutils_1%3a2.41.2-4_amd64.deb ...
|
|
441
|
+
#7 15.64 Unpacking bsdutils (1:2.41.2-4) over (1:2.40.4-3) ...
|
|
442
|
+
#7 15.68 Setting up bsdutils (1:2.41.2-4) ...
|
|
443
|
+
#7 15.70 (Reading database ...
|
|
444
|
+
#7 15.72 Preparing to unpack .../libblkid1_2.41.2-4_amd64.deb ...
|
|
445
|
+
#7 15.72 Unpacking libblkid1:amd64 (2.41.2-4) over (2.40.4-3) ...
|
|
446
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#7 22.35 dpkg: considering deconfiguration of libicu-dev:amd64, which would be broken by installation of icu-devtools ...
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#7 22.35 dpkg: yes, will deconfigure libicu-dev:amd64 (broken by icu-devtools)
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#7 29.00 Setting up media-types (14.0.0) ...
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#7 29.73 Generating locales (this might take a while)...
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#7 30.98 Setting up unixodbc-common (2.3.12-2) ...
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#7 30.98 Setting up libsepol2:amd64 (3.9-2) ...
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#7 31.15 Regenerating fonts cache... done.
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#7 34.41 Setting up libmbedtls21:amd64 (3.6.4-2) ...
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#7 34.42 Setting up libharfbuzz0b:amd64 (12.1.0-1) ...
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#7 34.43 Setting up libp11-kit-dev:amd64 (0.25.9-2) ...
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#7 34.61 Setting up libpcre2-dev:amd64 (10.46-1) ...
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#7 34.62 Setting up libgirepository-2.0-0:amd64 (2.86.1-1) ...
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#7 34.62 Setting up libselinux1-dev:amd64 (3.9-2) ...
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#7 34.62 Setting up libpq5:amd64 (18.0-1) ...
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#7 34.62 Setting up libx11-dev:amd64 (2:1.8.12-1) ...
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#7 34.64 Setting up libmbedtls-dev:amd64 (3.6.4-2) ...
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+
#7 34.64 Setting up gir1.2-harfbuzz-0.0:amd64 (12.1.0-1) ...
|
|
1166
|
+
#7 34.64 Setting up libfreetype-dev:amd64 (2.13.3+dfsg-1) ...
|
|
1167
|
+
#7 34.64 Setting up libxcb-shm0-dev:amd64 (1.17.0-2+b1) ...
|
|
1168
|
+
#7 34.65 Setting up libsasl2-dev (2.1.28+dfsg1-10) ...
|
|
1169
|
+
#7 34.65 Setting up libexpat1-dev:amd64 (2.7.3-1) ...
|
|
1170
|
+
#7 34.65 Setting up libgnutls-dane0t64:amd64 (3.8.10-3) ...
|
|
1171
|
+
#7 34.66 Setting up libharfbuzz-cairo0:amd64 (12.1.0-1) ...
|
|
1172
|
+
#7 34.66 Setting up libsqlite3-dev:amd64 (3.46.1-8) ...
|
|
1173
|
+
#7 34.66 Setting up libjpeg62-turbo-dev:amd64 (1:2.1.5-4) ...
|
|
1174
|
+
#7 34.66 Setting up librtmp1:amd64 (2.4+20151223.gitfa8646d.1-3) ...
|
|
1175
|
+
#7 34.67 Setting up libgssrpc4t64:amd64 (1.21.3-5) ...
|
|
1176
|
+
#7 34.67 Setting up uuid-dev:amd64 (2.41.2-4) ...
|
|
1177
|
+
#7 34.67 Setting up gir1.2-freedesktop-dev:amd64 (1.86.0-6) ...
|
|
1178
|
+
#7 34.67 Setting up comerr-dev:amd64 (2.1-1.47.2-3+b3) ...
|
|
1179
|
+
#7 34.68 Setting up libxcb-render0-dev:amd64 (1.17.0-2+b1) ...
|
|
1180
|
+
#7 34.68 Setting up libgit2-1.9:amd64 (1.9.1+ds-1) ...
|
|
1181
|
+
#7 34.68 Setting up libxext-dev:amd64 (2:1.3.4-1+b3) ...
|
|
1182
|
+
#7 34.69 Setting up libharfbuzz-subset0:amd64 (12.1.0-1) ...
|
|
1183
|
+
#7 34.69 Setting up libxrender-dev:amd64 (1:0.9.12-1) ...
|
|
1184
|
+
#7 34.69 Setting up libgit2-dev:amd64 (1.9.1+ds-1) ...
|
|
1185
|
+
#7 34.70 Setting up libkadm5clnt-mit12:amd64 (1.21.3-5) ...
|
|
1186
|
+
#7 34.70 Setting up libgnutls28-dev:amd64 (3.8.10-3) ...
|
|
1187
|
+
#7 34.71 Setting up libblkid-dev:amd64 (2.41.2-4) ...
|
|
1188
|
+
#7 34.71 Setting up girepository-tools:amd64 (2.86.1-1) ...
|
|
1189
|
+
#7 34.72 Setting up libcurl4t64:amd64 (8.17.0~rc3-1) ...
|
|
1190
|
+
#7 34.72 Setting up libkdb5-10t64:amd64 (1.21.3-5) ...
|
|
1191
|
+
#7 34.72 Setting up libfontconfig-dev:amd64 (2.15.0-2.4) ...
|
|
1192
|
+
#7 34.73 Setting up libsm-dev:amd64 (2:1.2.6-1) ...
|
|
1193
|
+
#7 34.73 Setting up libjpeg-dev:amd64 (1:2.1.5-4) ...
|
|
1194
|
+
#7 34.73 Setting up libtiff-dev:amd64 (4.7.1-1) ...
|
|
1195
|
+
#7 34.73 Setting up librtmp-dev:amd64 (2.4+20151223.gitfa8646d.1-3) ...
|
|
1196
|
+
#7 34.74 Setting up libkadm5srv-mit12:amd64 (1.21.3-5) ...
|
|
1197
|
+
#7 34.74 Setting up libmount-dev:amd64 (2.41.2-4) ...
|
|
1198
|
+
#7 34.74 Setting up krb5-multidev:amd64 (1.21.3-5) ...
|
|
1199
|
+
#7 34.75 Setting up libglib2.0-dev-bin (2.86.1-1) ...
|
|
1200
|
+
#7 34.75 Setting up libgio-2.0-dev:amd64 (2.86.1-1) ...
|
|
1201
|
+
#7 34.75 Setting up libtiff5-dev:amd64 (4.7.1-1) ...
|
|
1202
|
+
#7 34.75 Setting up libkrb5-dev:amd64 (1.21.3-5) ...
|
|
1203
|
+
#7 34.76 Setting up libglib2.0-dev:amd64 (2.86.1-1) ...
|
|
1204
|
+
#7 34.76 Setting up libcurl4-openssl-dev:amd64 (8.17.0~rc3-1) ...
|
|
1205
|
+
#7 34.76 Setting up libcairo2-dev:amd64 (1.18.4-1+b1) ...
|
|
1206
|
+
#7 34.76 Setting up libharfbuzz-dev:amd64 (12.1.0-1) ...
|
|
1207
|
+
#7 34.77 Processing triggers for libc-bin (2.41-12) ...
|
|
1208
|
+
#7 DONE 35.2s
|
|
1208
1209
|
|
|
1209
1210
|
#8 [3/9] WORKDIR /app
|
|
1210
1211
|
#8 DONE 0.0s
|
|
1211
1212
|
|
|
1212
1213
|
#9 [4/9] RUN R -e "install.packages('renv', repos = 'https://cloud.r-project.org')"
|
|
1213
|
-
#9 0.
|
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1214
|
-
#9 0.
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|
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1216
|
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#9 0.
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1217
|
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1218
|
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#9 0.
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1219
|
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#9 0.
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1220
|
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#9 0.
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1221
|
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#9 0.
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1222
|
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#9 0.
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1223
|
-
#9 0.
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1224
|
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#9 0.
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1225
|
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#9 0.
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1226
|
-
#9 0.
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1227
|
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#9 0.
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1228
|
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#9 0.
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1229
|
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#9 0.
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1230
|
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#9 0.
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1231
|
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#9 0.
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1232
|
-
#9 0.
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1233
|
-
#9 0.
|
|
1234
|
-
#9 0.
|
|
1235
|
-
#9 1.
|
|
1236
|
-
#9
|
|
1237
|
-
#9
|
|
1238
|
-
#9 2.
|
|
1239
|
-
#9 2.
|
|
1240
|
-
#9 2.
|
|
1241
|
-
#9 2.
|
|
1242
|
-
#9 2.
|
|
1243
|
-
#9 2.
|
|
1244
|
-
#9 2.
|
|
1245
|
-
#9 2.
|
|
1246
|
-
#9 10.
|
|
1247
|
-
#9 10.
|
|
1248
|
-
#9 10.
|
|
1249
|
-
#9 10.
|
|
1250
|
-
#9 10.
|
|
1251
|
-
#9 10.
|
|
1252
|
-
#9 10.
|
|
1253
|
-
#9 10.
|
|
1254
|
-
#9
|
|
1255
|
-
#9
|
|
1256
|
-
#9 11.
|
|
1257
|
-
#9 11.
|
|
1258
|
-
#9 11.
|
|
1259
|
-
#9 11.
|
|
1260
|
-
#9 11.
|
|
1261
|
-
#9 11.
|
|
1262
|
-
#9 11.
|
|
1263
|
-
#9 11.
|
|
1264
|
-
#9 11.
|
|
1265
|
-
#9 DONE 11.
|
|
1214
|
+
#9 0.192
|
|
1215
|
+
#9 0.192 R version 4.4.2 (2024-10-31) -- "Pile of Leaves"
|
|
1216
|
+
#9 0.192 Copyright (C) 2024 The R Foundation for Statistical Computing
|
|
1217
|
+
#9 0.192 Platform: x86_64-pc-linux-gnu
|
|
1218
|
+
#9 0.192
|
|
1219
|
+
#9 0.192 R is free software and comes with ABSOLUTELY NO WARRANTY.
|
|
1220
|
+
#9 0.192 You are welcome to redistribute it under certain conditions.
|
|
1221
|
+
#9 0.192 Type 'license()' or 'licence()' for distribution details.
|
|
1222
|
+
#9 0.192
|
|
1223
|
+
#9 0.192 Natural language support but running in an English locale
|
|
1224
|
+
#9 0.192
|
|
1225
|
+
#9 0.192 R is a collaborative project with many contributors.
|
|
1226
|
+
#9 0.192 Type 'contributors()' for more information and
|
|
1227
|
+
#9 0.192 'citation()' on how to cite R or R packages in publications.
|
|
1228
|
+
#9 0.192
|
|
1229
|
+
#9 0.192 Type 'demo()' for some demos, 'help()' for on-line help, or
|
|
1230
|
+
#9 0.192 'help.start()' for an HTML browser interface to help.
|
|
1231
|
+
#9 0.192 Type 'q()' to quit R.
|
|
1232
|
+
#9 0.192
|
|
1233
|
+
#9 0.277 > install.packages('renv', repos = 'https://cloud.r-project.org')
|
|
1234
|
+
#9 0.279 Installing package into ‘/usr/local/lib/R/site-library’
|
|
1235
|
+
#9 0.279 (as ‘lib’ is unspecified)
|
|
1236
|
+
#9 1.662 trying URL 'https://cloud.r-project.org/src/contrib/renv_1.1.5.tar.gz'
|
|
1237
|
+
#9 1.961 Content type 'application/x-gzip' length 1255206 bytes (1.2 MB)
|
|
1238
|
+
#9 1.963 ==================================================
|
|
1239
|
+
#9 2.101 downloaded 1.2 MB
|
|
1240
|
+
#9 2.101
|
|
1241
|
+
#9 2.645 * installing *source* package ‘renv’ ...
|
|
1242
|
+
#9 2.665 ** package ‘renv’ successfully unpacked and MD5 sums checked
|
|
1243
|
+
#9 2.665 ** using staged installation
|
|
1244
|
+
#9 2.678 ** R
|
|
1245
|
+
#9 2.764 ** inst
|
|
1246
|
+
#9 2.772 ** byte-compile and prepare package for lazy loading
|
|
1247
|
+
#9 10.35 ** libs
|
|
1248
|
+
#9 10.35 using C compiler: ‘gcc (Debian 14.2.0-17) 14.2.0’
|
|
1249
|
+
#9 10.35 gcc -I"/usr/share/R/include" -DNDEBUG -fpic -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.4.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -c renv.c -o renv.o
|
|
1250
|
+
#9 10.35 gcc -shared -L/usr/lib/R/lib -Wl,-z,relro -o renv.so renv.o -L/usr/lib/R/lib -lR
|
|
1251
|
+
#9 10.35 ** help
|
|
1252
|
+
#9 10.46 *** installing help indices
|
|
1253
|
+
#9 10.56 *** copying figures
|
|
1254
|
+
#9 10.56 ** building package indices
|
|
1255
|
+
#9 10.81 ** installing vignettes
|
|
1256
|
+
#9 10.81 ** testing if installed package can be loaded from temporary location
|
|
1257
|
+
#9 11.09 ** checking absolute paths in shared objects and dynamic libraries
|
|
1258
|
+
#9 11.10 ** testing if installed package can be loaded from final location
|
|
1259
|
+
#9 11.57 ** testing if installed package keeps a record of temporary installation path
|
|
1260
|
+
#9 11.58 * DONE (renv)
|
|
1261
|
+
#9 11.61
|
|
1262
|
+
#9 11.61 The downloaded source packages are in
|
|
1263
|
+
#9 11.61 ‘/tmp/RtmpwQmLMq/downloaded_packages’
|
|
1264
|
+
#9 11.61 >
|
|
1265
|
+
#9 11.61 >
|
|
1266
|
+
#9 DONE 11.6s
|
|
1266
1267
|
|
|
1267
1268
|
#10 [5/9] COPY *.R .
|
|
1268
1269
|
#10 DONE 0.0s
|
|
@@ -1271,238 +1272,238 @@
|
|
|
1271
1272
|
#11 DONE 0.0s
|
|
1272
1273
|
|
|
1273
1274
|
#12 [7/9] RUN R --no-echo -e "renv::restore(clean = TRUE)"
|
|
1274
|
-
#12 4.
|
|
1275
|
-
#12 4.
|
|
1276
|
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#12 4.
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|
1277
|
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#12 4.
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1278
|
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#12 4.
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1279
|
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#12 4.
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1280
|
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#12 4.
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1281
|
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1282
|
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1283
|
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|
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|
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1286
|
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1287
|
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|
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1289
|
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1290
|
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1291
|
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1292
|
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#12 4.
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1293
|
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1294
|
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#12 4.
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1295
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1296
|
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1297
|
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1298
|
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#12 4.
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1299
|
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#12 4.
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1300
|
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#12 4.
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1301
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#12 4.
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1302
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#12 4.
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1303
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#12 4.
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#12 4.
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#12 4.
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#12 4.
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1307
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#12 4.
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#12 4.
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1311
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#12 4.
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1334
|
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#12 4.
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1350
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#12 4.
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#12
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|
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#12
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1355
|
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#12
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|
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#12
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#12
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#12
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#12
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|
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#12
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|
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#12
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|
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#12
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|
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#12
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1364
|
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#12
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|
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#12
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1366
|
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#12
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1367
|
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#12
|
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1368
|
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#12
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1369
|
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#12
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1370
|
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#12
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1371
|
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#12
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|
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#12
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|
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#12
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1374
|
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#12
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|
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#12
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|
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#12
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|
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|
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#12
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1379
|
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#12
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1380
|
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#12
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1381
|
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#12
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1382
|
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#12 30.
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1383
|
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#12 30.
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#12
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1385
|
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#12
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1386
|
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#12 31.
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1387
|
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#12
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1388
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#12 32.
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1389
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#12 32.
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1390
|
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#12 32.
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1391
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#12 33.
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1392
|
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#12 33.
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1393
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#12
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1394
|
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#12
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1395
|
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#12
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1396
|
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#12 34.
|
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1397
|
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#12
|
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1398
|
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#12
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1399
|
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#12
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1400
|
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#12
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1401
|
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#12
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|
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#12
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|
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|
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#12
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|
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#12
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|
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#12
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1407
|
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#12
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1408
|
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#12
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1409
|
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#12 224.9 - Installing BiocManager ... OK [built from source and cached in 1.7s]
|
|
1434
|
+
#12 226.7 - Installing MASS ... OK [built from source and cached in 5.6s]
|
|
1435
|
+
#12 234.0 - Installing BH ... OK [built from source and cached in 6.0s]
|
|
1436
|
+
#12 239.9 - Installing BiocGenerics ... OK [built from source and cached in 2.9s]
|
|
1437
|
+
#12 242.8 - Installing BiocVersion ... OK [built from source and cached in 0.75s]
|
|
1438
|
+
#12 243.6 - Installing Biobase ... OK [built from source and cached in 6.5s]
|
|
1439
|
+
#12 250.1 - Installing formatR ... OK [built from source and cached in 1.3s]
|
|
1440
|
+
#12 251.4 - Installing lambda.r ... OK [built from source and cached in 1.5s]
|
|
1441
|
+
#12 253.0 - Installing futile.options ... OK [built from source and cached in 1.0s]
|
|
1442
|
+
#12 254.0 - Installing futile.logger ... OK [built from source and cached in 1.4s]
|
|
1443
|
+
#12 255.4 - Installing snow ... OK [built from source and cached in 1.4s]
|
|
1444
|
+
#12 256.8 - Installing cpp11 ... OK [built from source and cached in 1.2s]
|
|
1445
|
+
#12 258.1 - Installing BiocParallel ... OK [built from source and cached in 9.6s]
|
|
1446
|
+
#12 267.7 - Installing matrixStats ... OK [built from source and cached in 12s]
|
|
1447
|
+
#12 279.7 - Installing locfit ... OK [built from source and cached in 9.2s]
|
|
1448
|
+
#12 288.9 - Installing cli ... OK [built from source and cached in 8.2s]
|
|
1449
|
+
#12 297.1 - Installing glue ... OK [built from source and cached in 1.6s]
|
|
1450
|
+
#12 298.8 - Installing rlang ... OK [built from source and cached in 11s]
|
|
1451
|
+
#12 309.4 - Installing lifecycle ... OK [built from source and cached in 1.6s]
|
|
1452
|
+
#12 311.0 - Installing gtable ... OK [built from source and cached in 2.0s]
|
|
1453
|
+
#12 313.0 - Installing isoband ... OK [built from source and cached in 4.4s]
|
|
1454
|
+
#12 317.4 - Installing farver ... OK [built from source and cached in 20s]
|
|
1455
|
+
#12 337.2 - Installing labeling ... OK [built from source and cached in 1.3s]
|
|
1456
|
+
#12 338.5 - Installing colorspace ... OK [built from source and cached in 5.3s]
|
|
1457
|
+
#12 343.8 - Installing munsell ... OK [built from source and cached in 1.4s]
|
|
1458
|
+
#12 345.2 - Installing R6 ... OK [built from source and cached in 1.3s]
|
|
1459
|
+
#12 346.5 - Installing RColorBrewer ... OK [built from source and cached in 1.4s]
|
|
1460
|
+
#12 347.9 - Installing viridisLite ... OK [built from source and cached in 1.0s]
|
|
1461
|
+
#12 349.0 - Installing scales ... OK [built from source and cached in 4.2s]
|
|
1462
|
+
#12 353.2 - Installing fansi ... OK [built from source and cached in 3.8s]
|
|
1463
|
+
#12 357.0 - Installing magrittr ... OK [built from source and cached in 1.3s]
|
|
1464
|
+
#12 358.4 - Installing utf8 ... OK [built from source and cached in 3.3s]
|
|
1465
|
+
#12 361.8 - Installing vctrs ... OK [built from source and cached in 17s]
|
|
1466
|
+
#12 378.4 - Installing pillar ... OK [built from source and cached in 3.6s]
|
|
1467
|
+
#12 381.9 - Installing pkgconfig ... OK [built from source and cached in 0.99s]
|
|
1468
|
+
#12 383.0 - Installing tibble ... OK [built from source and cached in 3.4s]
|
|
1469
|
+
#12 386.4 - Installing withr ... OK [built from source and cached in 1.5s]
|
|
1470
|
+
#12 388.1 - Installing ggplot2 ... OK [built from source and cached in 14s]
|
|
1471
|
+
#12 402.5 - Installing Rcpp ... OK [built from source and cached in 18s]
|
|
1472
|
+
#12 420.6 - Installing MatrixGenerics ... OK [built from source and cached in 2.6s]
|
|
1473
|
+
#12 423.3 - Installing S4Vectors ... OK [built from source and cached in 16s]
|
|
1474
|
+
#12 439.7 - Installing IRanges ... OK [built from source and cached in 41s]
|
|
1475
|
+
#12 481.3 - Installing zlibbioc ... OK [built from source and cached in 1.4s]
|
|
1476
|
+
#12 482.7 - Installing XVector ... OK [built from source and cached in 21s]
|
|
1477
|
+
#12 503.3 - Installing curl ... OK [built from source and cached in 3.7s]
|
|
1478
|
+
#12 507.0 - Installing jsonlite ... OK [built from source and cached in 3.7s]
|
|
1479
|
+
#12 510.7 - Installing mime ... OK [built from source and cached in 1.2s]
|
|
1480
|
+
#12 512.0 - Installing sys ... OK [built from source and cached in 1.3s]
|
|
1481
|
+
#12 513.2 - Installing askpass ... OK [built from source and cached in 1.1s]
|
|
1482
|
+
#12 514.4 - Installing openssl ... OK [built from source and cached in 4.8s]
|
|
1483
|
+
#12 519.2 - Installing httr ... OK [built from source and cached in 3.2s]
|
|
1484
|
+
#12 522.5 - Installing UCSC.utils ... OK [built from source and cached in 3.2s]
|
|
1485
|
+
#12 525.8 - Installing GenomeInfoDbData ... OK [built from source and cached in 0.9s]
|
|
1486
|
+
#12 526.7 - Installing GenomeInfoDb ... OK [built from source and cached in 19s]
|
|
1487
|
+
#12 546.0 - Installing GenomicRanges ... OK [built from source and cached in 25s]
|
|
1488
|
+
#12 570.7 - Installing crayon ... OK [built from source and cached in 1.7s]
|
|
1489
|
+
#12 572.4 - Installing abind ... OK [built from source and cached in 1.3s]
|
|
1490
|
+
#12 573.8 - Installing S4Arrays ... OK [built from source and cached in 31s]
|
|
1491
|
+
#12 604.3 - Installing SparseArray ... OK [built from source and cached in 45s]
|
|
1492
|
+
#12 649.0 - Installing DelayedArray ... OK [built from source and cached in 46s]
|
|
1493
|
+
#12 694.7 - Installing SummarizedExperiment ... OK [built from source and cached in 52s]
|
|
1494
|
+
#12 746.5 - Installing RcppArmadillo ... OK [built from source and cached in 15s]
|
|
1495
|
+
#12 761.7 - Installing DESeq2 ... OK [built from source and cached in 49s]
|
|
1496
|
+
#12 810.4 - Installing plyr ... OK [built from source and cached in 6.1s]
|
|
1497
|
+
#12 816.7 - Installing stringi ... OK [built from source and cached in 55s]
|
|
1498
|
+
#12 871.4 - Installing stringr ... OK [built from source and cached in 2.2s]
|
|
1499
|
+
#12 873.6 - Installing reshape2 ... OK [built from source and cached in 6.5s]
|
|
1500
|
+
#12 880.1
|
|
1501
|
+
#12 880.1 The following loaded package(s) have been updated:
|
|
1502
|
+
#12 880.1 - renv
|
|
1503
|
+
#12 880.1 - BiocManager
|
|
1504
|
+
#12 880.1 Restart your R session to use the new versions.
|
|
1505
|
+
#12 880.1
|
|
1506
|
+
#12 DONE 880.3s
|
|
1506
1507
|
|
|
1507
1508
|
#13 [8/9] RUN echo "#!/bin/bash\nR --no-echo --no-restore -e "renv::restore()"\n"$@"" > /app/run.sh
|
|
1508
1509
|
#13 DONE 0.1s
|
|
@@ -1512,14 +1513,13 @@
|
|
|
1512
1513
|
|
|
1513
1514
|
#15 exporting to image
|
|
1514
1515
|
#15 exporting layers
|
|
1515
|
-
#15 exporting layers 8.
|
|
1516
|
-
#15 writing image sha256:
|
|
1517
|
-
#15 naming to containers.pl-open.science/milaboratories/pl-containers:local-image.
|
|
1518
|
-
#15 DONE 8.
|
|
1519
|
-
Untagged: containers.pl-open.science/milaboratories/pl-containers:local-image.cfc351498fe3
|
|
1516
|
+
#15 exporting layers 8.9s done
|
|
1517
|
+
#15 writing image sha256:1b506f3dc8507447df0ed5e8d1855efa47ac80425ac7c0d1149ca8214a487f71 done
|
|
1518
|
+
#15 naming to containers.pl-open.science/milaboratories/pl-containers:local-image.ed7c70af63a9 done
|
|
1519
|
+
#15 DONE 8.9s
|
|
1520
1520
|
[32minfo[39m: Docker image is built:
|
|
1521
|
-
tag: 'containers.pl-open.science/milaboratories/pl-containers:platforma-open.milaboratories.run-diff-clonotype-abundance-deseq2-r.software.
|
|
1522
|
-
location file: '/home/runner/work/differential-clonotype-abundance/differential-clonotype-abundance/software/dist/artifacts/
|
|
1521
|
+
tag: 'containers.pl-open.science/milaboratories/pl-containers:platforma-open.milaboratories.run-diff-clonotype-abundance-deseq2-r.software.clonotype-deseq.1b506f3dc850'
|
|
1522
|
+
location file: '/home/runner/work/differential-clonotype-abundance/differential-clonotype-abundance/software/dist/artifacts/clonotype-deseq/docker_x64.json'
|
|
1523
1523
|
[32minfo[39m: Building docker image...
|
|
1524
1524
|
#0 building with "default" instance using docker driver
|
|
1525
1525
|
|
|
@@ -1531,7 +1531,7 @@ Untagged: containers.pl-open.science/milaboratories/pl-containers:local-image.cf
|
|
|
1531
1531
|
#2 DONE 0.0s
|
|
1532
1532
|
|
|
1533
1533
|
#3 [internal] load metadata for docker.io/library/r-base:4.4.2
|
|
1534
|
-
#3 DONE 0.
|
|
1534
|
+
#3 DONE 0.5s
|
|
1535
1535
|
|
|
1536
1536
|
#4 [internal] load .dockerignore
|
|
1537
1537
|
#4 transferring context: 2B done
|
|
@@ -1541,54 +1541,288 @@ Untagged: containers.pl-open.science/milaboratories/pl-containers:local-image.cf
|
|
|
1541
1541
|
#5 DONE 0.0s
|
|
1542
1542
|
|
|
1543
1543
|
#6 [internal] load build context
|
|
1544
|
-
#6 transferring context:
|
|
1544
|
+
#6 transferring context: 29.98kB done
|
|
1545
1545
|
#6 DONE 0.0s
|
|
1546
1546
|
|
|
1547
|
-
#7 [
|
|
1547
|
+
#7 [2/9] RUN apt-get update && apt-get install -y libcurl4-openssl-dev libssl-dev libxml2-dev libcairo2-dev libgit2-dev default-libmysqlclient-dev libpq-dev libsasl2-dev libsqlite3-dev libssh2-1-dev unixodbc-dev libharfbuzz-dev libfribidi-dev libfreetype6-dev libpng-dev libtiff5-dev libjpeg-dev libgsl-dev libbz2-dev liblzma-dev libpcre2-dev && apt-get clean && rm -rf /var/lib/apt/lists/*
|
|
1548
1548
|
#7 CACHED
|
|
1549
1549
|
|
|
1550
|
-
#8 [
|
|
1550
|
+
#8 [3/9] WORKDIR /app
|
|
1551
1551
|
#8 CACHED
|
|
1552
1552
|
|
|
1553
|
-
#9 [
|
|
1553
|
+
#9 [4/9] RUN R -e "install.packages('renv', repos = 'https://cloud.r-project.org')"
|
|
1554
1554
|
#9 CACHED
|
|
1555
1555
|
|
|
1556
|
-
#10 [
|
|
1557
|
-
#10
|
|
1556
|
+
#10 [5/9] COPY *.R .
|
|
1557
|
+
#10 DONE 0.0s
|
|
1558
1558
|
|
|
1559
|
-
#11 [
|
|
1560
|
-
#11
|
|
1559
|
+
#11 [6/9] COPY ./renv.lock ./renv.lock
|
|
1560
|
+
#11 DONE 0.0s
|
|
1561
1561
|
|
|
1562
|
-
#12 [
|
|
1563
|
-
#12
|
|
1562
|
+
#12 [7/9] RUN R --no-echo -e "renv::restore(clean = TRUE)"
|
|
1563
|
+
#12 4.150 The following package(s) will be updated:
|
|
1564
|
+
#12 4.150
|
|
1565
|
+
#12 4.150 # Bioconductor ---------------------------------------------------------------
|
|
1566
|
+
#12 4.150 - GenomeInfoDbData [* -> 1.2.13]
|
|
1567
|
+
#12 4.150
|
|
1568
|
+
#12 4.150 # Bioconductor 3.20 ----------------------------------------------------------
|
|
1569
|
+
#12 4.150 - Biobase [* -> 2.66.0]
|
|
1570
|
+
#12 4.150 - BiocGenerics [* -> 0.52.0]
|
|
1571
|
+
#12 4.150 - BiocParallel [* -> 1.40.0]
|
|
1572
|
+
#12 4.150 - BiocVersion [* -> 3.20.0]
|
|
1573
|
+
#12 4.150 - DelayedArray [* -> 0.32.0]
|
|
1574
|
+
#12 4.150 - DESeq2 [* -> 1.46.0]
|
|
1575
|
+
#12 4.150 - GenomeInfoDb [* -> 1.42.1]
|
|
1576
|
+
#12 4.150 - GenomicRanges [* -> 1.58.0]
|
|
1577
|
+
#12 4.150 - IRanges [* -> 2.40.1]
|
|
1578
|
+
#12 4.150 - MatrixGenerics [* -> 1.18.1]
|
|
1579
|
+
#12 4.150 - S4Arrays [* -> 1.6.0]
|
|
1580
|
+
#12 4.150 - S4Vectors [* -> 0.44.0]
|
|
1581
|
+
#12 4.150 - SparseArray [* -> 1.6.1]
|
|
1582
|
+
#12 4.150 - SummarizedExperiment [* -> 1.36.0]
|
|
1583
|
+
#12 4.150 - UCSC.utils [* -> 1.2.0]
|
|
1584
|
+
#12 4.150 - XVector [* -> 0.46.0]
|
|
1585
|
+
#12 4.150 - zlibbioc [* -> 1.52.0]
|
|
1586
|
+
#12 4.150
|
|
1587
|
+
#12 4.150 # CRAN -----------------------------------------------------------------------
|
|
1588
|
+
#12 4.150 - BiocManager [1.30.26 -> 1.30.25]
|
|
1589
|
+
#12 4.150 - MASS [7.3-64 -> 7.3-60.2]
|
|
1590
|
+
#12 4.150 - Matrix [1.7-2 -> 1.7-0]
|
|
1591
|
+
#12 4.150 - nlme [3.1-167 -> 3.1-164]
|
|
1592
|
+
#12 4.150 - renv [1.1.5 -> 1.0.11]
|
|
1593
|
+
#12 4.150 - abind [* -> 1.4-8]
|
|
1594
|
+
#12 4.150 - askpass [* -> 1.2.1]
|
|
1595
|
+
#12 4.150 - BH [* -> 1.87.0-1]
|
|
1596
|
+
#12 4.150 - cli [* -> 3.6.3]
|
|
1597
|
+
#12 4.150 - colorspace [* -> 2.1-1]
|
|
1598
|
+
#12 4.150 - cpp11 [* -> 0.5.1]
|
|
1599
|
+
#12 4.150 - crayon [* -> 1.5.3]
|
|
1600
|
+
#12 4.150 - curl [* -> 6.2.0]
|
|
1601
|
+
#12 4.150 - fansi [* -> 1.0.6]
|
|
1602
|
+
#12 4.150 - farver [* -> 2.1.2]
|
|
1603
|
+
#12 4.150 - formatR [* -> 1.14]
|
|
1604
|
+
#12 4.150 - futile.logger [* -> 1.4.3]
|
|
1605
|
+
#12 4.150 - futile.options [* -> 1.0.1]
|
|
1606
|
+
#12 4.150 - ggplot2 [* -> 3.5.1]
|
|
1607
|
+
#12 4.150 - glue [* -> 1.8.0]
|
|
1608
|
+
#12 4.150 - gtable [* -> 0.3.6]
|
|
1609
|
+
#12 4.150 - httr [* -> 1.4.7]
|
|
1610
|
+
#12 4.150 - isoband [* -> 0.2.7]
|
|
1611
|
+
#12 4.150 - jsonlite [* -> 1.8.9]
|
|
1612
|
+
#12 4.150 - labeling [* -> 0.4.3]
|
|
1613
|
+
#12 4.150 - lambda.r [* -> 1.2.4]
|
|
1614
|
+
#12 4.150 - lifecycle [* -> 1.0.4]
|
|
1615
|
+
#12 4.150 - locfit [* -> 1.5-9.10]
|
|
1616
|
+
#12 4.150 - magrittr [* -> 2.0.3]
|
|
1617
|
+
#12 4.150 - matrixStats [* -> 1.5.0]
|
|
1618
|
+
#12 4.150 - mime [* -> 0.12]
|
|
1619
|
+
#12 4.150 - munsell [* -> 0.5.1]
|
|
1620
|
+
#12 4.150 - openssl [* -> 2.3.1]
|
|
1621
|
+
#12 4.150 - pillar [* -> 1.10.1]
|
|
1622
|
+
#12 4.150 - pkgconfig [* -> 2.0.3]
|
|
1623
|
+
#12 4.150 - plyr [* -> 1.8.9]
|
|
1624
|
+
#12 4.150 - R6 [* -> 2.5.1]
|
|
1625
|
+
#12 4.150 - RColorBrewer [* -> 1.1-3]
|
|
1626
|
+
#12 4.150 - Rcpp [* -> 1.0.14]
|
|
1627
|
+
#12 4.150 - RcppArmadillo [* -> 14.2.2-1]
|
|
1628
|
+
#12 4.150 - reshape2 [* -> 1.4.4]
|
|
1629
|
+
#12 4.150 - rlang [* -> 1.1.5]
|
|
1630
|
+
#12 4.150 - scales [* -> 1.3.0]
|
|
1631
|
+
#12 4.150 - snow [* -> 0.4-4]
|
|
1632
|
+
#12 4.150 - stringi [* -> 1.8.4]
|
|
1633
|
+
#12 4.150 - stringr [* -> 1.5.1]
|
|
1634
|
+
#12 4.150 - sys [* -> 3.4.3]
|
|
1635
|
+
#12 4.150 - tibble [* -> 3.2.1]
|
|
1636
|
+
#12 4.150 - utf8 [* -> 1.2.4]
|
|
1637
|
+
#12 4.150 - vctrs [* -> 0.6.5]
|
|
1638
|
+
#12 4.150 - viridisLite [* -> 0.4.2]
|
|
1639
|
+
#12 4.150 - withr [* -> 3.0.2]
|
|
1640
|
+
#12 4.150
|
|
1641
|
+
#12 4.165 # Downloading packages -------------------------------------------------------
|
|
1642
|
+
#12 4.429 - Downloading Matrix from CRAN ... OK [2.4 Mb in 0.33s]
|
|
1643
|
+
#12 4.901 - Downloading renv from CRAN ... OK [1.2 Mb in 0.81s]
|
|
1644
|
+
#12 5.784 - Downloading nlme from CRAN ... OK [817.2 Kb in 0.73s]
|
|
1645
|
+
#12 6.581 - Downloading BiocManager from CRAN ... OK [579.5 Kb in 0.18s]
|
|
1646
|
+
#12 6.817 - Downloading MASS from CRAN ... OK [499.9 Kb in 0.17s]
|
|
1647
|
+
#12 7.033 - Downloading BH from CRAN ... OK [13.7 Mb in 0.62s]
|
|
1648
|
+
#12 8.914 - Querying repositories for available source packages ... Done!
|
|
1649
|
+
#12 13.54 - Downloading Biobase from Bioconductor 3.20 ... OK [1.9 Mb in 1.0s]
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|
+
#12 14.63 - Querying repositories for available source packages ... Done!
|
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1651
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+
#12 18.53 - Downloading BiocGenerics from Bioconductor 3.20 ... OK [55.7 Kb in 0.59s]
|
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1652
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#12 19.20 - Downloading BiocVersion from Bioconductor 3.20 ... OK [983 bytes in 0.57s]
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#12 21.21 - Downloading BiocParallel from Bioconductor 3.20 ... ERROR [cannot open URL 'https://cloud.r-project.org/src/contrib/Archive/BiocParallel/BiocParallel_1.40.0.tar.gz']
|
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1654
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#12 21.40 - Downloading BiocParallel from Bioconductor 3.20 ... OK [977 Kb in 0.98s]
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1655
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+
#12 22.52 - Downloading futile.logger from CRAN ... OK [17 Kb in 0.14s]
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1656
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+
#12 22.72 - Downloading lambda.r from CRAN ... OK [25.1 Kb in 0.11s]
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1657
|
+
#12 22.91 - Downloading formatR from CRAN ... OK [93.8 Kb]
|
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1658
|
+
#12 23.03 - Downloading futile.options from CRAN ... OK [3.8 Kb in 0.57s]
|
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1659
|
+
#12 23.64 - Downloading snow from CRAN ... OK [20 Kb]
|
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1660
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+
#12 23.75 - Downloading cpp11 from CRAN ... OK [285 Kb in 0.17s]
|
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1661
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#12 23.96 - Downloading DESeq2 from Bioconductor 3.20 ... OK [2.4 Mb in 1.1s]
|
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+
#12 25.12 - Downloading matrixStats from CRAN ... OK [207.2 Kb]
|
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1663
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+
#12 25.29 - Downloading locfit from CRAN ... OK [196.1 Kb in 0.16s]
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1664
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+
#12 25.52 - Downloading ggplot2 from CRAN ... OK [3.4 Mb in 0.29s]
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1665
|
+
#12 26.02 - Downloading cli from CRAN ... OK [554.8 Kb]
|
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1666
|
+
#12 26.19 - Downloading glue from CRAN ... OK [123.7 Kb]
|
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1667
|
+
#12 26.32 - Downloading gtable from CRAN ... OK [144.7 Kb]
|
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1668
|
+
#12 26.46 - Downloading lifecycle from CRAN ... OK [105.1 Kb]
|
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1669
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+
#12 26.66 - Downloading rlang from CRAN ... OK [748.3 Kb in 0.18s]
|
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1670
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+
#12 26.94 - Downloading isoband from CRAN ... OK [1.5 Mb in 0.49s]
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1671
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+
#12 27.56 - Downloading scales from CRAN ... OK [295.5 Kb in 0.17s]
|
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1672
|
+
#12 27.82 - Downloading farver from CRAN ... OK [1.2 Mb in 0.18s]
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1673
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#12 28.11 - Downloading labeling from CRAN ... OK [9.9 Kb in 0.14s]
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1674
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#12 28.33 - Downloading munsell from CRAN ... OK [178 Kb in 0.24s]
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1675
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+
#12 28.74 - Downloading colorspace from CRAN ... OK [2 Mb in 0.18s]
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1676
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#12 29.10 - Downloading R6 from CRAN ... OK [61.9 Kb]
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1677
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+
#12 29.23 - Downloading RColorBrewer from CRAN ... OK [11.4 Kb]
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1678
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#12 29.35 - Downloading viridisLite from CRAN ... OK [1.2 Mb in 0.18s]
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1679
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#12 29.64 - Downloading tibble from CRAN ... OK [552.7 Kb in 0.13s]
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1680
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+
#12 29.88 - Downloading fansi from CRAN ... OK [471.2 Kb in 0.24s]
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+
#12 30.26 - Downloading magrittr from CRAN ... OK [260.8 Kb in 0.17s]
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1682
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+
#12 30.56 - Downloading pillar from CRAN ... OK [397.5 Kb]
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1683
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#12 30.81 - Downloading utf8 from CRAN ... OK [235.4 Kb]
|
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1684
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+
#12 31.00 - Downloading vctrs from CRAN ... OK [946.4 Kb in 0.27s]
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1685
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#12 31.41 - Downloading pkgconfig from CRAN ... OK [5.9 Kb]
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1686
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#12 31.52 - Downloading withr from CRAN ... OK [100.8 Kb]
|
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1687
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#12 31.63 - Downloading Rcpp from CRAN ... OK [2.9 Mb in 0.34s]
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#12 32.10 - Downloading MatrixGenerics from Bioconductor 3.20 ... OK [33.8 Kb in 0.67s]
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#12 32.83 - Downloading S4Vectors from Bioconductor 3.20 ... OK [1 Mb in 0.96s]
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#12 33.88 - Downloading IRanges from Bioconductor 3.20 ... OK [475.6 Kb in 0.78s]
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#12 34.79 - Downloading GenomicRanges from Bioconductor 3.20 ... OK [1.3 Mb in 0.8s]
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#12 35.69 - Downloading XVector from Bioconductor 3.20 ... OK [68.5 Kb in 0.72s]
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#12 36.50 - Downloading zlibbioc from Bioconductor 3.20 ... OK [375.8 Kb in 0.72s]
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#12 37.34 - Downloading GenomeInfoDb from Bioconductor 3.20 ... OK [3.4 Mb in 1.0s]
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#12 38.50 - Downloading UCSC.utils from Bioconductor 3.20 ... OK [231.3 Kb in 0.67s]
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1696
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+
#12 39.27 - Downloading httr from CRAN ... OK [115.7 Kb]
|
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1697
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+
#12 39.47 - Downloading curl from CRAN ... OK [911.3 Kb in 0.44s]
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+
#12 40.11 - Downloading jsonlite from CRAN ... OK [1 Mb in 0.18s]
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1699
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#12 40.49 - Downloading mime from CRAN ... OK [12.3 Kb]
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1700
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+
#12 40.69 - Downloading openssl from CRAN ... OK [1.1 Mb in 0.38s]
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1701
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#12 41.26 - Downloading askpass from CRAN ... OK [5.9 Kb]
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1702
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+
#12 41.45 - Downloading sys from CRAN ... OK [19.5 Kb]
|
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1703
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+
#12 41.58 - Downloading GenomeInfoDbData from Bioconductor ... OK [12.3 Mb in 0.98s]
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1704
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+
#12 42.74 - Downloading SummarizedExperiment from Bioconductor 3.20 ... OK [674.8 Kb in 0.81s]
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1705
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+
#12 43.65 - Downloading S4Arrays from Bioconductor 3.20 ... OK [281.7 Kb in 0.73s]
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+
#12 44.48 - Downloading crayon from CRAN ... OK [39.4 Kb]
|
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1707
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+
#12 44.60 - Downloading abind from CRAN ... OK [21.5 Kb]
|
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1708
|
+
#12 44.74 - Downloading DelayedArray from Bioconductor 3.20 ... OK [806.2 Kb in 0.82s]
|
|
1709
|
+
#12 45.71 - Downloading SparseArray from Bioconductor 3.20 ... OK [457.6 Kb in 0.81s]
|
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1710
|
+
#12 46.64 - Downloading RcppArmadillo from CRAN ... OK [1.3 Mb in 0.78s]
|
|
1711
|
+
#12 47.51 - Downloading plyr from CRAN ... OK [392.1 Kb in 0.1s]
|
|
1712
|
+
#12 47.65 - Downloading reshape2 from CRAN ... OK [36.4 Kb in 0.17s]
|
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1713
|
+
#12 47.88 - Downloading stringr from CRAN ... OK [172.5 Kb in 0.13s]
|
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|
+
#12 48.11 - Downloading stringi from CRAN ... OK [11.4 Mb in 0.7s]
|
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1715
|
+
#12 49.12 Successfully downloaded 70 packages in 45 seconds.
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+
#12 49.12
|
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1717
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+
#12 49.12 # Installing packages --------------------------------------------------------
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1718
|
+
#12 49.27 - Installing Matrix ... OK [built from source and cached in 2.5m]
|
|
1719
|
+
#12 197.6 - Installing renv ... OK [built from source and cached in 9.7s]
|
|
1720
|
+
#12 207.3 - Installing nlme ... OK [built from source and cached in 13s]
|
|
1721
|
+
#12 219.9 - Installing BiocManager ... OK [built from source and cached in 1.7s]
|
|
1722
|
+
#12 221.6 - Installing MASS ... OK [built from source and cached in 5.8s]
|
|
1723
|
+
#12 229.0 - Installing BH ... OK [built from source and cached in 5.9s]
|
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1724
|
+
#12 234.9 - Installing BiocGenerics ... OK [built from source and cached in 2.8s]
|
|
1725
|
+
#12 237.8 - Installing BiocVersion ... OK [built from source and cached in 0.76s]
|
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1726
|
+
#12 238.6 - Installing Biobase ... OK [built from source and cached in 6.5s]
|
|
1727
|
+
#12 245.1 - Installing formatR ... OK [built from source and cached in 1.3s]
|
|
1728
|
+
#12 246.4 - Installing lambda.r ... OK [built from source and cached in 1.5s]
|
|
1729
|
+
#12 248.0 - Installing futile.options ... OK [built from source and cached in 0.99s]
|
|
1730
|
+
#12 249.0 - Installing futile.logger ... OK [built from source and cached in 1.4s]
|
|
1731
|
+
#12 250.4 - Installing snow ... OK [built from source and cached in 1.4s]
|
|
1732
|
+
#12 251.8 - Installing cpp11 ... OK [built from source and cached in 1.2s]
|
|
1733
|
+
#12 253.0 - Installing BiocParallel ... OK [built from source and cached in 9.5s]
|
|
1734
|
+
#12 262.6 - Installing matrixStats ... OK [built from source and cached in 12s]
|
|
1735
|
+
#12 274.6 - Installing locfit ... OK [built from source and cached in 9.2s]
|
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1736
|
+
#12 283.8 - Installing cli ... OK [built from source and cached in 8.1s]
|
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1737
|
+
#12 291.9 - Installing glue ... OK [built from source and cached in 1.6s]
|
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1738
|
+
#12 293.6 - Installing rlang ... OK [built from source and cached in 11s]
|
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1739
|
+
#12 304.1 - Installing lifecycle ... OK [built from source and cached in 1.6s]
|
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1740
|
+
#12 305.8 - Installing gtable ... OK [built from source and cached in 2.0s]
|
|
1741
|
+
#12 307.9 - Installing isoband ... OK [built from source and cached in 4.4s]
|
|
1742
|
+
#12 312.3 - Installing farver ... OK [built from source and cached in 20s]
|
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1743
|
+
#12 332.0 - Installing labeling ... OK [built from source and cached in 1.3s]
|
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1744
|
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#12 333.3 - Installing colorspace ... OK [built from source and cached in 5.2s]
|
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1745
|
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#12 338.5 - Installing munsell ... OK [built from source and cached in 1.4s]
|
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1746
|
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#12 340.0 - Installing R6 ... OK [built from source and cached in 1.3s]
|
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1747
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+
#12 341.2 - Installing RColorBrewer ... OK [built from source and cached in 1.4s]
|
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|
+
#12 342.7 - Installing viridisLite ... OK [built from source and cached in 1.0s]
|
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1749
|
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#12 343.7 - Installing scales ... OK [built from source and cached in 4.2s]
|
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1750
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#12 348.0 - Installing fansi ... OK [built from source and cached in 3.8s]
|
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1751
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#12 351.8 - Installing magrittr ... OK [built from source and cached in 1.3s]
|
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1752
|
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#12 353.2 - Installing utf8 ... OK [built from source and cached in 3.3s]
|
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1753
|
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#12 356.5 - Installing vctrs ... OK [built from source and cached in 17s]
|
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1754
|
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#12 373.3 - Installing pillar ... OK [built from source and cached in 3.7s]
|
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1755
|
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#12 376.9 - Installing pkgconfig ... OK [built from source and cached in 1.0s]
|
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1756
|
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#12 378.0 - Installing tibble ... OK [built from source and cached in 3.4s]
|
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1757
|
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#12 381.4 - Installing withr ... OK [built from source and cached in 1.5s]
|
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1758
|
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#12 383.0 - Installing ggplot2 ... OK [built from source and cached in 14s]
|
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1759
|
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#12 397.4 - Installing Rcpp ... OK [built from source and cached in 18s]
|
|
1760
|
+
#12 415.3 - Installing MatrixGenerics ... OK [built from source and cached in 2.6s]
|
|
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|
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#12 418.0 - Installing S4Vectors ... OK [built from source and cached in 16s]
|
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1762
|
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#12 434.3 - Installing IRanges ... OK [built from source and cached in 42s]
|
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1763
|
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#12 475.9 - Installing zlibbioc ... OK [built from source and cached in 1.4s]
|
|
1764
|
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#12 477.3 - Installing XVector ... OK [built from source and cached in 21s]
|
|
1765
|
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#12 497.9 - Installing curl ... OK [built from source and cached in 3.7s]
|
|
1766
|
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#12 501.7 - Installing jsonlite ... OK [built from source and cached in 3.7s]
|
|
1767
|
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#12 505.4 - Installing mime ... OK [built from source and cached in 1.2s]
|
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1768
|
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#12 506.6 - Installing sys ... OK [built from source and cached in 1.3s]
|
|
1769
|
+
#12 507.9 - Installing askpass ... OK [built from source and cached in 1.1s]
|
|
1770
|
+
#12 509.1 - Installing openssl ... OK [built from source and cached in 4.8s]
|
|
1771
|
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#12 513.9 - Installing httr ... OK [built from source and cached in 3.2s]
|
|
1772
|
+
#12 517.1 - Installing UCSC.utils ... OK [built from source and cached in 3.1s]
|
|
1773
|
+
#12 520.4 - Installing GenomeInfoDbData ... OK [built from source and cached in 0.89s]
|
|
1774
|
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#12 521.3 - Installing GenomeInfoDb ... OK [built from source and cached in 19s]
|
|
1775
|
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#12 540.4 - Installing GenomicRanges ... OK [built from source and cached in 25s]
|
|
1776
|
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#12 565.4 - Installing crayon ... OK [built from source and cached in 1.7s]
|
|
1777
|
+
#12 567.1 - Installing abind ... OK [built from source and cached in 1.3s]
|
|
1778
|
+
#12 568.5 - Installing S4Arrays ... OK [built from source and cached in 30s]
|
|
1779
|
+
#12 598.9 - Installing SparseArray ... OK [built from source and cached in 45s]
|
|
1780
|
+
#12 643.8 - Installing DelayedArray ... OK [built from source and cached in 46s]
|
|
1781
|
+
#12 689.7 - Installing SummarizedExperiment ... OK [built from source and cached in 51s]
|
|
1782
|
+
#12 740.6 - Installing RcppArmadillo ... OK [built from source and cached in 15s]
|
|
1783
|
+
#12 755.6 - Installing DESeq2 ... OK [built from source and cached in 48s]
|
|
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|
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#12 804.1 - Installing plyr ... OK [built from source and cached in 6.1s]
|
|
1785
|
+
#12 810.5 - Installing stringi ... OK [built from source and cached in 55s]
|
|
1786
|
+
#12 865.4 - Installing stringr ... OK [built from source and cached in 2.2s]
|
|
1787
|
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#12 867.6 - Installing reshape2 ... OK [built from source and cached in 6.5s]
|
|
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|
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#12 874.1
|
|
1789
|
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#12 874.1 The following loaded package(s) have been updated:
|
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#12 874.1 - renv
|
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|
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#12 874.1 - BiocManager
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#12 874.1 Restart your R session to use the new versions.
|
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#12 874.1
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#12 DONE 874.3s
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#13 [
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#13 [8/9] RUN echo "#!/bin/bash\nR --no-echo --no-restore -e "renv::restore()"\n"$@"" > /app/run.sh
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#13 DONE 0.1s
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#15 exporting layers
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#15 exporting layers 7.8s done
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#15 writing image sha256:a59ad4145c36ed542adcf0ad972761b9aa8d300b0810cf469a381d3412ce418d done
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#15 naming to containers.pl-open.science/milaboratories/pl-containers:local-image.3509521017d2 done
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tag: 'containers.pl-open.science/milaboratories/pl-containers:platforma-open.milaboratories.run-diff-clonotype-abundance-deseq2-r.software.
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|
#0 building with "default" instance using docker driver
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#1 transferring dockerfile: 540B done
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#2 [
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#2 ...
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#3 DONE 0.
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#3 DONE 0.0s
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#8 3.400 WARNING: Running pip as the 'root' user can result in broken permissions and conflicting behaviour with the system package manager, possibly rendering your system unusable. It is recommended to use a virtual environment instead: https://pip.pypa.io/warnings/venv. Use the --root-user-action option if you know what you are doing and want to suppress this warning.
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#10 0.686 Downloading pandas-2.2.3-cp312-cp312-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (89 kB)
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#10 7.592 Successfully installed numpy-2.2.6 pandas-2.2.3 patsy-1.0.1 python-dateutil-2.9.0.post0 pytz-2025.2 six-1.17.0 tzdata-2025.2
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#10 7.592 WARNING: Running pip as the 'root' user can result in broken permissions and conflicting behaviour with the system package manager, possibly rendering your system unusable. It is recommended to use a virtual environment instead: https://pip.pypa.io/warnings/venv. Use the --root-user-action option if you know what you are doing and want to suppress this warning.
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