Last updated on 2026-08-04 14:51:58 CEST.
| Flavor | Version | Tinstall | Tcheck | Ttotal | Status | Flags |
|---|---|---|---|---|---|---|
| r-devel-linux-x86_64-debian-clang | 1.2.3 | 44.19 | 409.28 | 453.47 | OK | |
| r-devel-linux-x86_64-debian-gcc | 1.2.3 | 33.44 | 264.49 | 297.93 | NOTE | |
| r-devel-linux-x86_64-fedora-clang | 1.2.3 | 85.00 | 621.94 | 706.94 | OK | |
| r-devel-linux-x86_64-fedora-gcc | 1.2.3 | 35.00 | 263.57 | 298.57 | OK | |
| r-devel-windows-x86_64 | 1.2.3 | 56.00 | 404.00 | 460.00 | OK | |
| r-patched-linux-x86_64 | 1.2.3 | 49.75 | 388.60 | 438.35 | OK | |
| r-release-linux-x86_64 | 1.2.3 | 45.72 | 396.62 | 442.34 | OK | |
| r-release-macos-arm64 | 1.2.3 | 11.00 | 82.00 | 93.00 | OK | |
| r-release-macos-x86_64 | 1.2.3 | 33.00 | 361.00 | 394.00 | OK | |
| r-release-windows-x86_64 | 1.2.3 | 53.00 | 428.00 | 481.00 | OK | |
| r-oldrel-macos-arm64 | 1.2.3 | 9.00 | ERROR | |||
| r-oldrel-macos-x86_64 | 1.2.3 | 32.00 | 481.00 | 513.00 | ERROR | |
| r-oldrel-windows-x86_64 | 1.2.3 | 76.00 | 603.00 | 679.00 | OK |
Version: 1.2.3
Check: for new files in some other directories
Result: NOTE
Found the following files/directories:
‘~/tmp/scratch/Rtmp0arvXw’ ‘~/tmp/scratch/Rtmp0kt34P’
‘~/tmp/scratch/Rtmp1aU42c’ ‘~/tmp/scratch/Rtmp1ppXDA’
‘~/tmp/scratch/Rtmp2DFspl’ ‘~/tmp/scratch/Rtmp2cddXY’
‘~/tmp/scratch/Rtmp32RuAR’ ‘~/tmp/scratch/Rtmp33gExU’
‘~/tmp/scratch/Rtmp3Bcp59’ ‘~/tmp/scratch/Rtmp3rEYko’
‘~/tmp/scratch/Rtmp4MsVwS’ ‘~/tmp/scratch/Rtmp5RwquT’
‘~/tmp/scratch/Rtmp5dJf3B’ ‘~/tmp/scratch/Rtmp5dS9fG’
‘~/tmp/scratch/Rtmp5eG0k4’ ‘~/tmp/scratch/Rtmp6SHGno’
‘~/tmp/scratch/Rtmp6ePY9H’ ‘~/tmp/scratch/Rtmp79edDJ’
‘~/tmp/scratch/Rtmp7S2i50’ ‘~/tmp/scratch/Rtmp9JbtVk’
‘~/tmp/scratch/Rtmp9Mvh19’ ‘~/tmp/scratch/Rtmp9RUeU0’
‘~/tmp/scratch/Rtmp9ddhRb’ ‘~/tmp/scratch/Rtmp9rPO8a’
‘~/tmp/scratch/Rtmp9v0Iom’ ‘~/tmp/scratch/RtmpACDZlU’
‘~/tmp/scratch/RtmpBQmTjY’ ‘~/tmp/scratch/RtmpBZ2GCK’
‘~/tmp/scratch/RtmpBhxzff’ ‘~/tmp/scratch/RtmpBkzZRL’
‘~/tmp/scratch/RtmpBqT6RV’ ‘~/tmp/scratch/RtmpBzW9G7’
‘~/tmp/scratch/RtmpC6RKIO’ ‘~/tmp/scratch/RtmpCGUOei’
‘~/tmp/scratch/RtmpDYJxYf’ ‘~/tmp/scratch/RtmpDw4vLT’
‘~/tmp/scratch/RtmpEIuf0K’ ‘~/tmp/scratch/RtmpESYds7’
‘~/tmp/scratch/RtmpEgd5oE’ ‘~/tmp/scratch/RtmpEmoRFd’
‘~/tmp/scratch/RtmpEqt5q0’ ‘~/tmp/scratch/RtmpF1a1qd’
‘~/tmp/scratch/RtmpF6azI5’ ‘~/tmp/scratch/RtmpF8O8Ra’
‘~/tmp/scratch/RtmpFBd9gp’ ‘~/tmp/scratch/RtmpFyPpG6’
‘~/tmp/scratch/RtmpGR04sb’ ‘~/tmp/scratch/RtmpGfpy3O’
‘~/tmp/scratch/RtmpGuBzV5’ ‘~/tmp/scratch/RtmpHP3Qg0’
‘~/tmp/scratch/RtmpHPeO7I’ ‘~/tmp/scratch/RtmpHUGd8z’
‘~/tmp/scratch/RtmpIXByHM’ ‘~/tmp/scratch/RtmpIlXbXl’
‘~/tmp/scratch/RtmpJiRngh’ ‘~/tmp/scratch/RtmpJjQdSD’
‘~/tmp/scratch/RtmpJjcnE4’ ‘~/tmp/scratch/RtmpKCgnKH’
‘~/tmp/scratch/RtmpKhmswt’ ‘~/tmp/scratch/RtmpLuQsBt’
‘~/tmp/scratch/RtmpMOFycy’ ‘~/tmp/scratch/RtmpMrCmZ2’
‘~/tmp/scratch/RtmpNMFddn’ ‘~/tmp/scratch/RtmpNqaDWq’
‘~/tmp/scratch/RtmpODd605’ ‘~/tmp/scratch/RtmpOE1xn4’
‘~/tmp/scratch/RtmpOZsOEv’ ‘~/tmp/scratch/RtmpOiUds2’
‘~/tmp/scratch/RtmpOztH35’ ‘~/tmp/scratch/RtmpPkpPqf’
‘~/tmp/scratch/RtmpQFps0J’ ‘~/tmp/scratch/RtmpQUdtbc’
‘~/tmp/scratch/RtmpQlTsy0’ ‘~/tmp/scratch/RtmpR8dCtm’
‘~/tmp/scratch/RtmpRZZlKt’ ‘~/tmp/scratch/RtmpRdEAtc’
‘~/tmp/scratch/RtmpRgFMtq’ ‘~/tmp/scratch/RtmpRlIf9n’
‘~/tmp/scratch/RtmpS6R5Os’ ‘~/tmp/scratch/RtmpSpjaLq’
‘~/tmp/scratch/RtmpTY5yWI’ ‘~/tmp/scratch/RtmpUFjYIX’
‘~/tmp/scratch/RtmpUKuLIA’ ‘~/tmp/scratch/RtmpUaeewb’
‘~/tmp/scratch/RtmpUdQuY2’ ‘~/tmp/scratch/RtmpUm1Epq’
‘~/tmp/scratch/RtmpV44K6k’ ‘~/tmp/scratch/RtmpVHBxWP’
‘~/tmp/scratch/RtmpVzfZjv’ ‘~/tmp/scratch/RtmpWKbIZm’
‘~/tmp/scratch/RtmpWW5qWX’ ‘~/tmp/scratch/RtmpX20PIS’
‘~/tmp/scratch/RtmpXsews7’ ‘~/tmp/scratch/RtmpYCuVPg’
‘~/tmp/scratch/RtmpYUv3cg’ ‘~/tmp/scratch/RtmpYUvW5u’
‘~/tmp/scratch/RtmpYXYApF’ ‘~/tmp/scratch/RtmpZTI2pt’
‘~/tmp/scratch/Rtmpa7EPZx’ ‘~/tmp/scratch/RtmpaWuVOR’
‘~/tmp/scratch/Rtmpacg5tF’ ‘~/tmp/scratch/RtmpahDu9U’
‘~/tmp/scratch/RtmpatMuyO’ ‘~/tmp/scratch/RtmpbVdDlm’
‘~/tmp/scratch/RtmpblFcvL’ ‘~/tmp/scratch/RtmpbrQHq3’
‘~/tmp/scratch/RtmpdFX0nO’ ‘~/tmp/scratch/RtmpdaDUCr’
‘~/tmp/scratch/RtmpdgeJqR’ ‘~/tmp/scratch/RtmpdnLDDm’
‘~/tmp/scratch/Rtmpdtupab’ ‘~/tmp/scratch/RtmpeDLHHt’
‘~/tmp/scratch/RtmpeXh0IG’ ‘~/tmp/scratch/RtmpeqkizH’
‘~/tmp/scratch/Rtmpf68aHY’ ‘~/tmp/scratch/RtmpfFBbID’
‘~/tmp/scratch/RtmpfL0UJK’ ‘~/tmp/scratch/RtmpfaHVxo’
‘~/tmp/scratch/RtmpfoF7ls’ ‘~/tmp/scratch/RtmpgNp49T’
‘~/tmp/scratch/RtmpgVJV7w’ ‘~/tmp/scratch/RtmpgdESxh’
‘~/tmp/scratch/Rtmpgm2ZMW’ ‘~/tmp/scratch/RtmphJ1vTV’
‘~/tmp/scratch/RtmphrqcOy’ ‘~/tmp/scratch/RtmpiLYUeA’
‘~/tmp/scratch/RtmpiNeYf5’ ‘~/tmp/scratch/RtmpiUSGtD’
‘~/tmp/scratch/RtmpiUbFcI’ ‘~/tmp/scratch/Rtmpiwz9gt’
‘~/tmp/scratch/RtmpjOQeQp’ ‘~/tmp/scratch/RtmpjTzmwJ’
‘~/tmp/scratch/RtmpjtzGFE’ ‘~/tmp/scratch/Rtmpk1kKv2’
‘~/tmp/scratch/RtmpkT26i6’ ‘~/tmp/scratch/RtmpkUbldp’
‘~/tmp/scratch/Rtmpkp4E2f’ ‘~/tmp/scratch/RtmpkpH62M’
‘~/tmp/scratch/RtmplHjvN3’ ‘~/tmp/scratch/RtmplKhuVA’
‘~/tmp/scratch/RtmpliQRVo’ ‘~/tmp/scratch/Rtmplu9rbi’
‘~/tmp/scratch/RtmpmWQCTJ’ ‘~/tmp/scratch/RtmpmZ9yg9’
‘~/tmp/scratch/Rtmpmc5g6m’ ‘~/tmp/scratch/Rtmpn2rb5A’
‘~/tmp/scratch/Rtmpn4lr9n’ ‘~/tmp/scratch/Rtmpnh7SSU’
‘~/tmp/scratch/Rtmpo44Q5C’ ‘~/tmp/scratch/RtmpoN5frE’
‘~/tmp/scratch/RtmpoP6BZ7’ ‘~/tmp/scratch/RtmppzpnhO’
‘~/tmp/scratch/RtmpqWW2pw’ ‘~/tmp/scratch/RtmpqtWXDu’
‘~/tmp/scratch/RtmprPYQPY’ ‘~/tmp/scratch/RtmprqxhoD’
‘~/tmp/scratch/RtmpsDMyel’ ‘~/tmp/scratch/RtmpsLZRbC’
‘~/tmp/scratch/RtmptR2Lep’ ‘~/tmp/scratch/Rtmpukjwt3’
‘~/tmp/scratch/Rtmpv4ZbOY’ ‘~/tmp/scratch/RtmpvcNYUz’
‘~/tmp/scratch/Rtmpvy1ib0’ ‘~/tmp/scratch/Rtmpw0VEv5’
‘~/tmp/scratch/RtmpwKL6tj’ ‘~/tmp/scratch/RtmpwrFKWs’
‘~/tmp/scratch/Rtmpx1b2kP’ ‘~/tmp/scratch/Rtmpx58kLr’
‘~/tmp/scratch/RtmpxhX4HQ’ ‘~/tmp/scratch/RtmpydpS8j’
‘~/tmp/scratch/RtmpymoIl0’ ‘~/tmp/scratch/Rtmpyp2GjZ’
‘~/tmp/scratch/quarto-sessionef440190ea124975’
‘~/tmp/scratch/xvfb-run.0XBl4I’ ‘~/tmp/scratch/xvfb-run.1Bsg0R’
‘~/tmp/scratch/xvfb-run.1GHsOJ’ ‘~/tmp/scratch/xvfb-run.1hcdFN’
‘~/tmp/scratch/xvfb-run.1zt0eE’ ‘~/tmp/scratch/xvfb-run.44l6W0’
‘~/tmp/scratch/xvfb-run.5AbxTW’ ‘~/tmp/scratch/xvfb-run.61up2x’
‘~/tmp/scratch/xvfb-run.64O9vk’ ‘~/tmp/scratch/xvfb-run.6FE7Eb’
‘~/tmp/scratch/xvfb-run.7u3ILj’ ‘~/tmp/scratch/xvfb-run.89XGpy’
‘~/tmp/scratch/xvfb-run.8Oxdf4’ ‘~/tmp/scratch/xvfb-run.8QE6TX’
‘~/tmp/scratch/xvfb-run.8U5bIv’ ‘~/tmp/scratch/xvfb-run.8wfTK6’
‘~/tmp/scratch/xvfb-run.BD1yvm’ ‘~/tmp/scratch/xvfb-run.BW606B’
‘~/tmp/scratch/xvfb-run.BgGoLb’ ‘~/tmp/scratch/xvfb-run.BxO78j’
‘~/tmp/scratch/xvfb-run.Dc1Wfh’ ‘~/tmp/scratch/xvfb-run.E8AwUG’
‘~/tmp/scratch/xvfb-run.EZ0O5d’ ‘~/tmp/scratch/xvfb-run.FTs6On’
‘~/tmp/scratch/xvfb-run.GuQR8G’ ‘~/tmp/scratch/xvfb-run.HGzEgo’
‘~/tmp/scratch/xvfb-run.HWwJoo’ ‘~/tmp/scratch/xvfb-run.HfmhHh’
‘~/tmp/scratch/xvfb-run.IND2YU’ ‘~/tmp/scratch/xvfb-run.My0VKk’
‘~/tmp/scratch/xvfb-run.N2KtiF’ ‘~/tmp/scratch/xvfb-run.OdZofT’
‘~/tmp/scratch/xvfb-run.Pqx5Xw’ ‘~/tmp/scratch/xvfb-run.Q1JLRu’
‘~/tmp/scratch/xvfb-run.R8i0jU’ ‘~/tmp/scratch/xvfb-run.RJBqu9’
‘~/tmp/scratch/xvfb-run.SIHf3y’ ‘~/tmp/scratch/xvfb-run.UHGyW2’
‘~/tmp/scratch/xvfb-run.VbSOzj’ ‘~/tmp/scratch/xvfb-run.Y2frlq’
‘~/tmp/scratch/xvfb-run.YPK7qN’ ‘~/tmp/scratch/xvfb-run.aZAd4v’
‘~/tmp/scratch/xvfb-run.b5WHJM’ ‘~/tmp/scratch/xvfb-run.bPB4Z7’
‘~/tmp/scratch/xvfb-run.cMq57j’ ‘~/tmp/scratch/xvfb-run.fvHs2l’
‘~/tmp/scratch/xvfb-run.kns6O1’ ‘~/tmp/scratch/xvfb-run.kzzt1O’
‘~/tmp/scratch/xvfb-run.l1WS9y’ ‘~/tmp/scratch/xvfb-run.lbPx63’
‘~/tmp/scratch/xvfb-run.lqWadn’ ‘~/tmp/scratch/xvfb-run.mHMKCF’
‘~/tmp/scratch/xvfb-run.nLnHgK’ ‘~/tmp/scratch/xvfb-run.oA60bO’
‘~/tmp/scratch/xvfb-run.ojWOrF’ ‘~/tmp/scratch/xvfb-run.osn4Oy’
‘~/tmp/scratch/xvfb-run.pMTdUH’ ‘~/tmp/scratch/xvfb-run.qRU6Ff’
‘~/tmp/scratch/xvfb-run.qbpdq6’ ‘~/tmp/scratch/xvfb-run.rPYxB1’
‘~/tmp/scratch/xvfb-run.sTxFff’ ‘~/tmp/scratch/xvfb-run.spMZRW’
‘~/tmp/scratch/xvfb-run.tP2Lxz’ ‘~/tmp/scratch/xvfb-run.ungJei’
‘~/tmp/scratch/xvfb-run.uuB5An’ ‘~/tmp/scratch/xvfb-run.vC3CDA’
‘~/tmp/scratch/xvfb-run.vIR3Lz’ ‘~/tmp/scratch/xvfb-run.vL38wv’
‘~/tmp/scratch/xvfb-run.w1vXZC’ ‘~/tmp/scratch/xvfb-run.w60PBz’
‘~/tmp/scratch/xvfb-run.wQl1Dd’ ‘~/tmp/scratch/xvfb-run.xDTD8Q’
‘~/tmp/scratch/xvfb-run.xDlE5M’ ‘~/tmp/scratch/xvfb-run.xWq5Yq’
‘~/tmp/scratch/xvfb-run.zfxzgJ’
Flavor: r-devel-linux-x86_64-debian-gcc
Version: 1.2.3
Check: package dependencies
Result: ERROR
Packages required but not available: 'SNPRelate', 'snpStats'
See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Flavor: r-oldrel-macos-arm64
Version: 1.2.3
Check: examples
Result: ERROR
Running examples in ‘dartR.base-Ex.R’ failed
The error most likely occurred in:
> ### Name: gl.filter.ld
> ### Title: Filters loci based on linkage disequilibrium (LD)
> ### Aliases: gl.filter.ld
>
> ### ** Examples
>
> if ((requireNamespace("snpStats", quietly = TRUE)) & (requireNamespace("fields", quietly = TRUE))) {
+ test <- gl.filter.callrate(platypus.gl, threshold = 1)
+ test <- gl.filter.monomorphs(test)
+ report <- gl.report.ld.map(test)
+ res <- gl.filter.ld(x=test,ld.report = report)
+ }
Starting gl.filter.callrate
Processing genlight object with SNP data
Warning: data include loci that are scored NA across all individuals.
Consider filtering using gl <- gl.filter.allna(gl)
Warning: Data may include monomorphic loci in call rate
calculations for filtering
Recalculating Call Rate
Removing loci based on Call Rate, threshold = 1
Completed: gl.filter.callrate
Starting gl.filter.monomorphs
Processing genlight object with SNP data
Identifying monomorphic loci
Removing monomorphic loci and loci with all missing
data
Completed: gl.filter.monomorphs
Starting gl.report.ld.map
Processing genlight object with SNP data
There is no information in the chromosome/position slot of the genlight object.
Assigning the same chromosome ('1') to all the SNPs in the dataset.
Assigning a sequence from 1 to n loci as the position of each SNP.
Calculating LD for all possible SNP pair combinations Calculating pairwise LD in population SEVERN_ABOVE
*** caught segfault ***
address 0x1, cause 'memory not mapped'
Traceback:
1: snpStats::ld(genotype_loci, genotype_loci, stats = ld.stat)
2: gl.report.ld.map(test)
An irrecoverable exception occurred. R is aborting now ...
Flavor: r-oldrel-macos-x86_64