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bioconda::bioconductor-genomeinfodbdata-1.2.9-r42hdfd78af_0 problems with installation
Hi, I'm trying to install genomeinfodbdata-1.2.9 but an error occurs during the installation: In particualar this is the report:
message: post-link script failed for package bioconda::bioconductor-genomeinfodbdata-1.2.9-r42hdfd78af_0 location of failed script: /hpcnfs/home/ieo5212/miniconda3/envs/R_single_cell1/bin/.bioconductor-genomeinfodbdata-post-link.sh ==> script messages <== <None> ==> script output <== stdout: /hpcnfs/home/ieo5212/miniconda3/envs/R_single_cell1/share/genomeinfodbdata-1.2.9/"GenomeInfoDbData_1.2.9.tar.gz": OK ERROR: sub-architecture 'R' is not installed ERROR: sub-architecture 'R.c~' is not installed
stderr: ++ dirname -- /hpcnfs/home/ieo5212/miniconda3/envs/R_single_cell1/bin/installBiocDataPackage.sh
- SCRIPT_DIR=/hpcnfs/home/ieo5212/miniconda3/envs/R_single_cell1/bin/../share/bioconductor-data-packages
- json=/hpcnfs/home/ieo5212/miniconda3/envs/R_single_cell1/bin/../share/bioconductor-data-packages/dataURLs.json ++ yq '."genomeinfodbdata-1.2.9".fn' /hpcnfs/home/ieo5212/miniconda3/envs/R_single_cell1/bin/../share/bioconductor-data-packages/dataURLs.json
- FN='"GenomeInfoDbData_1.2.9.tar.gz"'
- IFS=
- read -r value ++ yq '."genomeinfodbdata-1.2.9".urls[]' /hpcnfs/home/ieo5212/miniconda3/envs/R_single_cell1/bin/../share/bioconductor-data-packages/dataURLs.json
- URLS+=($value)
- IFS=
- read -r value
- URLS+=($value)
- IFS=
- read -r value
- URLS+=($value)
- IFS=
- read -r value ++ yq '."genomeinfodbdata-1.2.9".md5' /hpcnfs/home/ieo5212/miniconda3/envs/R_single_cell1/bin/../share/bioconductor-data-packages/dataURLs.json
- MD5='"7cc138cfb74665fdfa8d1c244eac4879"'
- STAGING=/hpcnfs/home/ieo5212/miniconda3/envs/R_single_cell1/share/genomeinfodbdata-1.2.9
- mkdir -p /hpcnfs/home/ieo5212/miniconda3/envs/R_single_cell1/share/genomeinfodbdata-1.2.9
- TARBALL='/hpcnfs/home/ieo5212/miniconda3/envs/R_single_cell1/share/genomeinfodbdata-1.2.9/"GenomeInfoDbData_1.2.9.tar.gz"'
- SUCCESS=0
- for URL in '${URLS[@]}' ++ echo '"https://bioconductor.org/packages/3.16/data/annotation/src/contrib/GenomeInfoDbData_1.2.9.tar.gz"' ++ tr -d '"'
- URL=https://bioconductor.org/packages/3.16/data/annotation/src/contrib/GenomeInfoDbData_1.2.9.tar.gz ++ echo '"7cc138cfb74665fdfa8d1c244eac4879"' ++ tr -d '"'
- MD5=7cc138cfb74665fdfa8d1c244eac4879
- curl -L https://bioconductor.org/packages/3.16/data/annotation/src/contrib/GenomeInfoDbData_1.2.9.tar.gz % Total % Received % Xferd Average Speed Time Time Time Current Dload Upload Total Spent Left Speed 100 11.1M 100 11.1M 0 0 7708k 0 0:00:01 0:00:01 --:--:-- 7705k
- [[ 0 == 0 ]] ++ uname -s
- [[ Linux == \L\i\n\u\x ]]
- md5sum -c
- SUCCESS=1
- break
- [[ 1 != 1 ]]
- R CMD INSTALL --library=/hpcnfs/home/ieo5212/miniconda3/envs/R_single_cell1/lib/R/library '/hpcnfs/home/ieo5212/miniconda3/envs/R_single_cell1/share/genomeinfodbdata-1.2.9/"GenomeInfoDbData_1.2.9.tar.gz"'
- installing source package ‘GenomeInfoDbData’ ... ** using staged installation ** data ** inst ** help *** installing help indices ** building package indices ** testing if installed package can be loaded from temporary location *** arch - R *** arch - R.c~ ERROR: loading failed for ‘R’, ‘R.c~’
- removing ‘/hpcnfs/home/ieo5212/miniconda3/envs/R_single_cell1/lib/R/library/GenomeInfoDbData’
- restoring previous ‘/hpcnfs/home/ieo5212/miniconda3/envs/R_single_cell1/lib/R/library/GenomeInfoDbData’
return code: 1
kwargs: {}
class: LinkError message: post-link script failed for package bioconda::bioconductor-genomeinfodbdata-1.2.9-r42hdfd78af_0 location of failed script: /hpcnfs/home/ieo5212/miniconda3/envs/R_single_cell1/bin/.bioconductor-genomeinfodbdata-post-link.sh ==> script messages <== <None> ==> script output <== stdout: /hpcnfs/home/ieo5212/miniconda3/envs/R_single_cell1/share/genomeinfodbdata-1.2.9/"GenomeInfoDbData_1.2.9.tar.gz": OK ERROR: sub-architecture 'R' is not installed ERROR: sub-architecture 'R.c~' is not installed
stderr: ++ dirname -- /hpcnfs/home/ieo5212/miniconda3/envs/R_single_cell1/bin/installBiocDataPackage.sh
- SCRIPT_DIR=/hpcnfs/home/ieo5212/miniconda3/envs/R_single_cell1/bin/../share/bioconductor-data-packages
- json=/hpcnfs/home/ieo5212/miniconda3/envs/R_single_cell1/bin/../share/bioconductor-data-packages/dataURLs.json ++ yq '."genomeinfodbdata-1.2.9".fn' /hpcnfs/home/ieo5212/miniconda3/envs/R_single_cell1/bin/../share/bioconductor-data-packages/dataURLs.json
- FN='"GenomeInfoDbData_1.2.9.tar.gz"'
- IFS=
- read -r value ++ yq '."genomeinfodbdata-1.2.9".urls[]' /hpcnfs/home/ieo5212/miniconda3/envs/R_single_cell1/bin/../share/bioconductor-data-packages/dataURLs.json
- URLS+=($value)
- IFS=
- read -r value
- URLS+=($value)
- IFS=
- read -r value
- URLS+=($value)
- IFS=
- read -r value ++ yq '."genomeinfodbdata-1.2.9".md5' /hpcnfs/home/ieo5212/miniconda3/envs/R_single_cell1/bin/../share/bioconductor-data-packages/dataURLs.json
- MD5='"7cc138cfb74665fdfa8d1c244eac4879"'
- STAGING=/hpcnfs/home/ieo5212/miniconda3/envs/R_single_cell1/share/genomeinfodbdata-1.2.9
- mkdir -p /hpcnfs/home/ieo5212/miniconda3/envs/R_single_cell1/share/genomeinfodbdata-1.2.9
- TARBALL='/hpcnfs/home/ieo5212/miniconda3/envs/R_single_cell1/share/genomeinfodbdata-1.2.9/"GenomeInfoDbData_1.2.9.tar.gz"'
- SUCCESS=0
- for URL in '${URLS[@]}' ++ echo '"https://bioconductor.org/packages/3.16/data/annotation/src/contrib/GenomeInfoDbData_1.2.9.tar.gz"' ++ tr -d '"'
- URL=https://bioconductor.org/packages/3.16/data/annotation/src/contrib/GenomeInfoDbData_1.2.9.tar.gz ++ echo '"7cc138cfb74665fdfa8d1c244eac4879"' ++ tr -d '"'
- MD5=7cc138cfb74665fdfa8d1c244eac4879
- curl -L https://bioconductor.org/packages/3.16/data/annotation/src/contrib/GenomeInfoDbData_1.2.9.tar.gz % Total % Received % Xferd Average Speed Time Time Time Current Dload Upload Total Spent Left Speed 100 11.1M 100 11.1M 0 0 7708k 0 0:00:01 0:00:01 --:--:-- 7705k
- [[ 0 == 0 ]] ++ uname -s
- [[ Linux == \L\i\n\u\x ]]
- md5sum -c
- SUCCESS=1
- break
- [[ 1 != 1 ]]
- R CMD INSTALL --library=/hpcnfs/home/ieo5212/miniconda3/envs/R_single_cell1/lib/R/library '/hpcnfs/home/ieo5212/miniconda3/envs/R_single_cell1/share/genomeinfodbdata-1.2.9/"GenomeInfoDbData_1.2.9.tar.gz"'
- installing source package ‘GenomeInfoDbData’ ... ** using staged installation ** data ** inst ** help *** installing help indices ** building package indices ** testing if installed package can be loaded from temporary location *** arch - R *** arch - R.c~ ERROR: loading failed for ‘R’, ‘R.c~’
return code: 1
ValueError: unsupported format character 'T' (0x54) at index 2255
Thanks Francesca