CRAN Package Check Results for Package TmCalculator

Last updated on 2026-08-01 02:57:44 CEST.

Flavor	Version	Tinstall	Tcheck	Ttotal	Status	Flags
r-devel-linux-x86_64-debian-clang	1.0.8	38.86	523.71	562.57	OK
r-devel-linux-x86_64-debian-gcc	1.0.8	32.04	376.36	408.40	NOTE
r-devel-linux-x86_64-fedora-clang	1.0.8	78.00	904.86	982.86	OK
r-devel-linux-x86_64-fedora-gcc	1.0.8	35.00	450.20	485.20	NOTE
r-devel-windows-x86_64	1.0.8	46.00	603.00	649.00	OK
r-patched-linux-x86_64	1.0.7	38.51	503.91	542.42	OK
r-release-linux-x86_64	1.0.7	41.64	500.62	542.26	OK
r-release-macos-arm64	1.0.8	14.00	164.00	178.00	ERROR
r-release-macos-x86_64	1.0.8	33.00	670.00	703.00	ERROR
r-release-windows-x86_64	1.0.8	45.00	576.00	621.00	OK
r-oldrel-macos-arm64	1.0.8	12.00	186.00	198.00	ERROR
r-oldrel-macos-x86_64	1.0.8	30.00	764.00	794.00	ERROR
r-oldrel-windows-x86_64	1.0.8	61.00	722.00	783.00	OK

Check Details

Version: 1.0.8
Check: for new files in some other directories
Result: NOTE Found the following files/directories: ‘~/tmp/scratch/Rtmp00VXYS’ ‘~/tmp/scratch/Rtmp0GBf81’ ‘~/tmp/scratch/Rtmp1INTgq’ ‘~/tmp/scratch/Rtmp1OQAby’ ‘~/tmp/scratch/Rtmp1j0Kgh’ ‘~/tmp/scratch/Rtmp1pjm8a’ ‘~/tmp/scratch/Rtmp2TOMIM’ ‘~/tmp/scratch/Rtmp2YI6B1’ ‘~/tmp/scratch/Rtmp3OBeMB’ ‘~/tmp/scratch/Rtmp3X63U6’ ‘~/tmp/scratch/Rtmp4FmYPn’ ‘~/tmp/scratch/Rtmp4MALF3’ ‘~/tmp/scratch/Rtmp4uEOWc’ ‘~/tmp/scratch/Rtmp512DAT’ ‘~/tmp/scratch/Rtmp5mOFs4’ ‘~/tmp/scratch/Rtmp6EsKO4’ ‘~/tmp/scratch/Rtmp6X7AXJ’ ‘~/tmp/scratch/Rtmp6pYYB3’ ‘~/tmp/scratch/Rtmp72rzx0’ ‘~/tmp/scratch/Rtmp7I8bD6’ ‘~/tmp/scratch/Rtmp7ie03G’ ‘~/tmp/scratch/Rtmp7mziOJ’ ‘~/tmp/scratch/Rtmp8Gq8cO’ ‘~/tmp/scratch/Rtmp8LjtzD’ ‘~/tmp/scratch/Rtmp8Vm2Bo’ ‘~/tmp/scratch/Rtmp8dWm2w’ ‘~/tmp/scratch/RtmpA10BMV’ ‘~/tmp/scratch/RtmpArT0Qk’ ‘~/tmp/scratch/RtmpAswQNH’ ‘~/tmp/scratch/RtmpB3clBc’ ‘~/tmp/scratch/RtmpBtlvpK’ ‘~/tmp/scratch/RtmpCDriLc’ ‘~/tmp/scratch/RtmpCl6bQQ’ ‘~/tmp/scratch/RtmpCmdT62’ ‘~/tmp/scratch/RtmpDBdzBy’ ‘~/tmp/scratch/RtmpDKst4t’ ‘~/tmp/scratch/RtmpEXQlgg’ ‘~/tmp/scratch/RtmpEZqopZ’ ‘~/tmp/scratch/RtmpFF0UIq’ ‘~/tmp/scratch/RtmpFbpcVu’ ‘~/tmp/scratch/RtmpG96Nm3’ ‘~/tmp/scratch/RtmpGKZHsO’ ‘~/tmp/scratch/RtmpGOeddY’ ‘~/tmp/scratch/RtmpHdKdIS’ ‘~/tmp/scratch/RtmpII4VMo’ ‘~/tmp/scratch/RtmpIeH7pD’ ‘~/tmp/scratch/RtmpIwAiMP’ ‘~/tmp/scratch/RtmpJjyJQm’ ‘~/tmp/scratch/RtmpJnETRr’ ‘~/tmp/scratch/RtmpKG1QJp’ ‘~/tmp/scratch/RtmpKiHOfY’ ‘~/tmp/scratch/RtmpL4LpTT’ ‘~/tmp/scratch/RtmpL9j18g’ ‘~/tmp/scratch/RtmpLffIvG’ ‘~/tmp/scratch/RtmpM9lnhN’ ‘~/tmp/scratch/RtmpMjCuUz’ ‘~/tmp/scratch/RtmpMjcUu6’ ‘~/tmp/scratch/RtmpNOq1Zl’ ‘~/tmp/scratch/RtmpNdRfqC’ ‘~/tmp/scratch/RtmpNqD8bF’ ‘~/tmp/scratch/RtmpNuhPd0’ ‘~/tmp/scratch/RtmpODxksm’ ‘~/tmp/scratch/RtmpONrKgY’ ‘~/tmp/scratch/RtmpOqz5DY’ ‘~/tmp/scratch/RtmpPGy9u5’ ‘~/tmp/scratch/RtmpPPWukw’ ‘~/tmp/scratch/RtmpPhReV3’ ‘~/tmp/scratch/RtmpRFJ5Za’ ‘~/tmp/scratch/RtmpSiav6j’ ‘~/tmp/scratch/RtmpT9VDqp’ ‘~/tmp/scratch/RtmpTjeulG’ ‘~/tmp/scratch/RtmpTv7KQl’ ‘~/tmp/scratch/RtmpU12Gxv’ ‘~/tmp/scratch/RtmpUHY3cv’ ‘~/tmp/scratch/RtmpUmOX5b’ ‘~/tmp/scratch/RtmpUnDPpz’ ‘~/tmp/scratch/RtmpUv7Nte’ ‘~/tmp/scratch/RtmpUvYiSy’ ‘~/tmp/scratch/RtmpWCYIZJ’ ‘~/tmp/scratch/RtmpWUQtwj’ ‘~/tmp/scratch/RtmpWcsyPr’ ‘~/tmp/scratch/RtmpWickU9’ ‘~/tmp/scratch/RtmpX5XeXH’ ‘~/tmp/scratch/RtmpX8iudi’ ‘~/tmp/scratch/RtmpXAPJFm’ ‘~/tmp/scratch/RtmpXICgDZ’ ‘~/tmp/scratch/RtmpXqgt9W’ ‘~/tmp/scratch/RtmpY1fJl6’ ‘~/tmp/scratch/RtmpZYBEVB’ ‘~/tmp/scratch/RtmpZeqFg4’ ‘~/tmp/scratch/Rtmpa6rky1’ ‘~/tmp/scratch/Rtmpa7eWSv’ ‘~/tmp/scratch/Rtmpa8TRKb’ ‘~/tmp/scratch/RtmpaNZSHb’ ‘~/tmp/scratch/RtmpaQkEc4’ ‘~/tmp/scratch/RtmpaY0DnF’ ‘~/tmp/scratch/RtmpanhoGD’ ‘~/tmp/scratch/RtmpasKckp’ ‘~/tmp/scratch/RtmpbGTEll’ ‘~/tmp/scratch/RtmpbRosnF’ ‘~/tmp/scratch/RtmpbtRoUo’ ‘~/tmp/scratch/RtmpcEJ6Tb’ ‘~/tmp/scratch/RtmpchbpJu’ ‘~/tmp/scratch/RtmpdW6SIL’ ‘~/tmp/scratch/RtmpdeJjxr’ ‘~/tmp/scratch/RtmpekjyJz’ ‘~/tmp/scratch/RtmpemaLfx’ ‘~/tmp/scratch/Rtmpfjjufn’ ‘~/tmp/scratch/Rtmpg4YpEX’ ‘~/tmp/scratch/Rtmpg52IwM’ ‘~/tmp/scratch/RtmpgFhphx’ ‘~/tmp/scratch/Rtmpgj95ZC’ ‘~/tmp/scratch/RtmpguL3U7’ ‘~/tmp/scratch/Rtmph2qXWk’ ‘~/tmp/scratch/RtmphPUd6l’ ‘~/tmp/scratch/RtmpiDnbou’ ‘~/tmp/scratch/RtmpiPP8Nr’ ‘~/tmp/scratch/RtmpiuKclZ’ ‘~/tmp/scratch/RtmpjhJnow’ ‘~/tmp/scratch/Rtmpjuj1mR’ ‘~/tmp/scratch/RtmpjutxP8’ ‘~/tmp/scratch/Rtmpk01qpC’ ‘~/tmp/scratch/Rtmpk5N6AX’ ‘~/tmp/scratch/RtmpkYQp45’ ‘~/tmp/scratch/Rtmpkgp0Pa’ ‘~/tmp/scratch/RtmplMOtdR’ ‘~/tmp/scratch/RtmplkcD3u’ ‘~/tmp/scratch/RtmplwhvMP’ ‘~/tmp/scratch/Rtmplyk92h’ ‘~/tmp/scratch/RtmpmDL3Ao’ ‘~/tmp/scratch/RtmpmS5LSN’ ‘~/tmp/scratch/RtmpmUPAjF’ ‘~/tmp/scratch/RtmpnHlzLK’ ‘~/tmp/scratch/RtmpnWSxfD’ ‘~/tmp/scratch/Rtmpo9M8xH’ ‘~/tmp/scratch/RtmpoCheMf’ ‘~/tmp/scratch/RtmpohhpEb’ ‘~/tmp/scratch/RtmppBVmhh’ ‘~/tmp/scratch/Rtmpq2zBWv’ ‘~/tmp/scratch/RtmpqwQNzD’ ‘~/tmp/scratch/RtmprC1VbU’ ‘~/tmp/scratch/RtmprZEodQ’ ‘~/tmp/scratch/Rtmpreo7NK’ ‘~/tmp/scratch/RtmpsAUFQK’ ‘~/tmp/scratch/RtmpsUMqHk’ ‘~/tmp/scratch/RtmpsZGMjH’ ‘~/tmp/scratch/RtmpstjNOf’ ‘~/tmp/scratch/Rtmptnt82F’ ‘~/tmp/scratch/RtmpuNvvev’ ‘~/tmp/scratch/RtmpuS7gNA’ ‘~/tmp/scratch/RtmpuixC6i’ ‘~/tmp/scratch/RtmpvbFc3K’ ‘~/tmp/scratch/Rtmpvj4Psh’ ‘~/tmp/scratch/RtmpvzGEZq’ ‘~/tmp/scratch/RtmpvzcM56’ ‘~/tmp/scratch/Rtmpw2AlKJ’ ‘~/tmp/scratch/Rtmpw5O6m4’ ‘~/tmp/scratch/Rtmpwn6JPw’ ‘~/tmp/scratch/RtmpwvUd7f’ ‘~/tmp/scratch/Rtmpx3AZWv’ ‘~/tmp/scratch/RtmpzaSnMv’ ‘~/tmp/scratch/xvfb-run.02Zjz3’ ‘~/tmp/scratch/xvfb-run.1hh1er’ ‘~/tmp/scratch/xvfb-run.1obDUn’ ‘~/tmp/scratch/xvfb-run.2YKzpV’ ‘~/tmp/scratch/xvfb-run.443gbZ’ ‘~/tmp/scratch/xvfb-run.4Is4MY’ ‘~/tmp/scratch/xvfb-run.4ogqhS’ ‘~/tmp/scratch/xvfb-run.533Dt2’ ‘~/tmp/scratch/xvfb-run.5pygb2’ ‘~/tmp/scratch/xvfb-run.7Mhgm8’ ‘~/tmp/scratch/xvfb-run.7UiOde’ ‘~/tmp/scratch/xvfb-run.9WqoI7’ ‘~/tmp/scratch/xvfb-run.9ZNEeZ’ ‘~/tmp/scratch/xvfb-run.ARezRi’ ‘~/tmp/scratch/xvfb-run.C3aRND’ ‘~/tmp/scratch/xvfb-run.CNb6tA’ ‘~/tmp/scratch/xvfb-run.GNPros’ ‘~/tmp/scratch/xvfb-run.Gs34Op’ ‘~/tmp/scratch/xvfb-run.HjkGdy’ ‘~/tmp/scratch/xvfb-run.HyO7E2’ ‘~/tmp/scratch/xvfb-run.MKuR0n’ ‘~/tmp/scratch/xvfb-run.MKvLAQ’ ‘~/tmp/scratch/xvfb-run.MhRGPa’ ‘~/tmp/scratch/xvfb-run.N48DMc’ ‘~/tmp/scratch/xvfb-run.NPkamy’ ‘~/tmp/scratch/xvfb-run.Nypv9w’ ‘~/tmp/scratch/xvfb-run.OMDZLs’ ‘~/tmp/scratch/xvfb-run.RY1yf3’ ‘~/tmp/scratch/xvfb-run.Rql2c1’ ‘~/tmp/scratch/xvfb-run.Rw7qOe’ ‘~/tmp/scratch/xvfb-run.RxzK9T’ ‘~/tmp/scratch/xvfb-run.SBdjFw’ ‘~/tmp/scratch/xvfb-run.SmGiKh’ ‘~/tmp/scratch/xvfb-run.SnI4fr’ ‘~/tmp/scratch/xvfb-run.SokF7q’ ‘~/tmp/scratch/xvfb-run.VEg3wd’ ‘~/tmp/scratch/xvfb-run.VlL2v7’ ‘~/tmp/scratch/xvfb-run.VqGb2I’ ‘~/tmp/scratch/xvfb-run.Woof4s’ ‘~/tmp/scratch/xvfb-run.XIQ2Ln’ ‘~/tmp/scratch/xvfb-run.XqDoIS’ ‘~/tmp/scratch/xvfb-run.XrWNIz’ ‘~/tmp/scratch/xvfb-run.YyDTWy’ ‘~/tmp/scratch/xvfb-run.Znw5hg’ ‘~/tmp/scratch/xvfb-run.aB8KIE’ ‘~/tmp/scratch/xvfb-run.aNiDgs’ ‘~/tmp/scratch/xvfb-run.aREoLp’ ‘~/tmp/scratch/xvfb-run.cbSQRo’ ‘~/tmp/scratch/xvfb-run.dMo22h’ ‘~/tmp/scratch/xvfb-run.e5pfU9’ ‘~/tmp/scratch/xvfb-run.fQTylQ’ ‘~/tmp/scratch/xvfb-run.gVCPVs’ ‘~/tmp/scratch/xvfb-run.gr4mZJ’ ‘~/tmp/scratch/xvfb-run.h1b3a1’ ‘~/tmp/scratch/xvfb-run.ibv8hw’ ‘~/tmp/scratch/xvfb-run.j7MwkO’ ‘~/tmp/scratch/xvfb-run.jtFLJU’ ‘~/tmp/scratch/xvfb-run.k1T3sC’ ‘~/tmp/scratch/xvfb-run.l0uIUr’ ‘~/tmp/scratch/xvfb-run.ltUJwY’ ‘~/tmp/scratch/xvfb-run.m9NCkF’ ‘~/tmp/scratch/xvfb-run.mOhxmz’ ‘~/tmp/scratch/xvfb-run.nW4Axe’ ‘~/tmp/scratch/xvfb-run.nlob8h’ ‘~/tmp/scratch/xvfb-run.o6YMBR’ ‘~/tmp/scratch/xvfb-run.oMnkPO’ ‘~/tmp/scratch/xvfb-run.oO7seL’ ‘~/tmp/scratch/xvfb-run.pl4reW’ ‘~/tmp/scratch/xvfb-run.pyv4uA’ ‘~/tmp/scratch/xvfb-run.qxrjMZ’ ‘~/tmp/scratch/xvfb-run.r7QYil’ ‘~/tmp/scratch/xvfb-run.rfipOX’ ‘~/tmp/scratch/xvfb-run.t9obDw’ ‘~/tmp/scratch/xvfb-run.uXSd7M’ ‘~/tmp/scratch/xvfb-run.wPrBuf’ ‘~/tmp/scratch/xvfb-run.wnxEmi’ ‘~/tmp/scratch/xvfb-run.yDvIB7’ ‘~/tmp/scratch/xvfb-run.zNXASS’ ‘~/tmp/scratch/xvfb-run.zcWtiS’ ‘~/tmp/scratch/xvfb-run.zz59R1’ Flavor: r-devel-linux-x86_64-debian-gcc

Version: 1.0.8
Check: for non-standard things in the check directory
Result: NOTE Found the following files/directories: ‘BSgenome.Ecoli.NCBI.ASM584v2’ ‘BSgenomeForge’ Flavor: r-devel-linux-x86_64-fedora-gcc

Version: 1.0.8
Check: re-building of vignette outputs
Result: ERROR Error(s) in re-building vignettes: --- re-building ‘genome_wide_tm_ecoli.Rmd’ using rmarkdown trying URL 'https://bioconductor.org/packages/3.23/bioc/bin/macosx/sonoma-arm64/contrib/4.6/BSgenomeForge_1.12.0.tgz' Content type 'application/x-gzip' length 833586 bytes (814 KB) ================================================== downloaded 814 KB trying URL 'https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/000/005/845/GCF_000005845.2_ASM584v2/GCF_000005845.2_ASM584v2_genomic.fna.gz' Content type 'application/x-gzip' length 1379902 bytes (1.3 MB) ================================================== downloaded 1.3 MB Quitting from genome_wide_tm_ecoli.Rmd:313-319 [linear-full] ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ <error/rlang_error> Error: ! Package 'karyoploteR' is required for linear genome plots. Install it with: BiocManager::install("karyoploteR") --- Backtrace: ▆ 1. └─TmCalculator::plot_genome_track(...) ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ Error: processing vignette 'genome_wide_tm_ecoli.Rmd' failed with diagnostics: Package 'karyoploteR' is required for linear genome plots. Install it with: BiocManager::install("karyoploteR") --- failed re-building ‘genome_wide_tm_ecoli.Rmd’ SUMMARY: processing the following file failed: ‘genome_wide_tm_ecoli.Rmd’ Error: Vignette re-building failed. Execution halted Flavor: r-release-macos-arm64

Version: 1.0.8
Check: re-building of vignette outputs
Result: ERROR Error(s) in re-building vignettes: --- re-building ‘genome_wide_tm_ecoli.Rmd’ using rmarkdown trying URL 'https://bioconductor.org/packages/3.23/bioc/bin/macosx/big-sur-x86_64/contrib/4.6/BSgenomeForge_1.12.0.tgz' Content type 'application/x-gzip' length 829233 bytes (809 KB) ================================================== downloaded 809 KB trying URL 'https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/000/005/845/GCF_000005845.2_ASM584v2/GCF_000005845.2_ASM584v2_genomic.fna.gz' Content type 'application/x-gzip' length 1379902 bytes (1.3 MB) ================================================== downloaded 1.3 MB Quitting from genome_wide_tm_ecoli.Rmd:313-319 [linear-full] ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ <error/rlang_error> Error: ! Package 'karyoploteR' is required for linear genome plots. Install it with: BiocManager::install("karyoploteR") --- Backtrace: ▆ 1. └─TmCalculator::plot_genome_track(...) ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ Error: processing vignette 'genome_wide_tm_ecoli.Rmd' failed with diagnostics: Package 'karyoploteR' is required for linear genome plots. Install it with: BiocManager::install("karyoploteR") --- failed re-building ‘genome_wide_tm_ecoli.Rmd’ SUMMARY: processing the following file failed: ‘genome_wide_tm_ecoli.Rmd’ Error: Vignette re-building failed. Execution halted Flavor: r-release-macos-x86_64

Version: 1.0.8
Check: re-building of vignette outputs
Result: ERROR Error(s) in re-building vignettes: --- re-building ‘genome_wide_tm_ecoli.Rmd’ using rmarkdown trying URL 'https://bioconductor.org/packages/3.22/bioc/bin/macosx/big-sur-arm64/contrib/4.5/BSgenomeForge_1.10.2.tgz' Content type 'application/x-compressed-tar' length 832361 bytes (812 KB) ================================================== downloaded 812 KB trying URL 'https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/000/005/845/GCF_000005845.2_ASM584v2/GCF_000005845.2_ASM584v2_genomic.fna.gz' Content type 'application/x-gzip' length 1379902 bytes (1.3 MB) ================================================== downloaded 1.3 MB 2026-08-01 10:41:59.976 R[22525:182192] XType: Using static font registry. Quitting from genome_wide_tm_ecoli.Rmd:313-319 [linear-full] ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ <error/rlang_error> Error: ! Package 'karyoploteR' is required for linear genome plots. Install it with: BiocManager::install("karyoploteR") --- Backtrace: ▆ 1. └─TmCalculator::plot_genome_track(...) ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ Error: processing vignette 'genome_wide_tm_ecoli.Rmd' failed with diagnostics: Package 'karyoploteR' is required for linear genome plots. Install it with: BiocManager::install("karyoploteR") --- failed re-building ‘genome_wide_tm_ecoli.Rmd’ SUMMARY: processing the following file failed: ‘genome_wide_tm_ecoli.Rmd’ Error: Vignette re-building failed. Execution halted Flavor: r-oldrel-macos-arm64

Version: 1.0.8
Check: re-building of vignette outputs
Result: ERROR Error(s) in re-building vignettes: --- re-building ‘genome_wide_tm_ecoli.Rmd’ using rmarkdown trying URL 'https://bioconductor.org/packages/3.21/bioc/bin/macosx/big-sur-x86_64/contrib/4.5/BSgenomeForge_1.8.1.tgz' Content type 'application/x-compressed-tar' length 827147 bytes (807 KB) ================================================== downloaded 807 KB trying URL 'https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/000/005/845/GCF_000005845.2_ASM584v2/GCF_000005845.2_ASM584v2_genomic.fna.gz' Content type 'application/x-gzip' length 1379902 bytes (1.3 MB) ================================================== downloaded 1.3 MB Quitting from genome_wide_tm_ecoli.Rmd:313-319 [linear-full] ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ <error/rlang_error> Error: ! Package 'karyoploteR' is required for linear genome plots. Install it with: BiocManager::install("karyoploteR") --- Backtrace: ▆ 1. └─TmCalculator::plot_genome_track(...) ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ Error: processing vignette 'genome_wide_tm_ecoli.Rmd' failed with diagnostics: Package 'karyoploteR' is required for linear genome plots. Install it with: BiocManager::install("karyoploteR") --- failed re-building ‘genome_wide_tm_ecoli.Rmd’ SUMMARY: processing the following file failed: ‘genome_wide_tm_ecoli.Rmd’ Error: Vignette re-building failed. Execution halted Flavor: r-oldrel-macos-x86_64