Le sam. 17 déc. 2016 11:45, Andreas Tille <ti...@debian.org> a écrit :
> Hi Aaron, > > I guess that's due to the new version of ncbi-tools+. Any suggested > patch for this problem? > Looks indeed related to a modification with formatdb. I do not know the tool itself but looking at executed command and formatdb help, should be able to find difference for a patch. Olivier > > Kind regards > > Andreas. > > On Sat, Dec 17, 2016 at 10:52:15AM +0100, Chris Lamb wrote: > > Source: metastudent-data > > Version: 2.0.1-1 > > Severity: serious > > Justification: fails to build from source > > User: reproducible-bui...@lists.alioth.debian.org > > Usertags: ftbfs > > X-Debbugs-Cc: reproducible-b...@lists.alioth.debian.org > > > > Dear Maintainer, > > > > metastudent-data fails to build from source in unstable/amd64: > > > > […] > > > > dh_auto_build -O--parallel > > dh_auto_build: Compatibility levels before 9 are deprecated (level 8 > in use) > > make -j9 > > make[1]: Entering directory '«BUILDDIR»' > > mkdir -p dataset_201401/BPO/ && \ > > formatdb -i "dataset_201401/BPO/goasp.fasta" -n > "dataset_201401/BPO/goasp.fasta" && rm -f formatdb.log > > mkdir -p dataset_201401/MFO/ && \ > > formatdb -i "dataset_201401/MFO/goasp.fasta" -n > "dataset_201401/MFO/goasp.fasta" && rm -f formatdb.log > > mkdir -p dataset_201401/CCO/ && \ > > formatdb -i "dataset_201401/CCO/goasp.fasta" -n > "dataset_201401/CCO/goasp.fasta" && rm -f formatdb.log > > USAGE > > makeblastdb [-h] [-help] [-in input_file] [-input_type type] > > -dbtype molecule_type [-title database_title] [-parse_seqids] > > [-hash_index] [-mask_data mask_data_files] [-mask_id mask_algo_ids] > > [-mask_desc mask_algo_descriptions] [-gi_mask] > > [-gi_mask_name gi_based_mask_names] [-out database_name] > > [-max_file_sz number_of_bytes] [-logfile File_Name] [-taxid TaxID] > > [-taxid_map TaxIDMapFile] [-version] > > > > DESCRIPTION > > Application to create BLAST databases, version 2.5.0+ > > > > Use '-help' to print detailed descriptions of command line arguments > > > ======================================================================== > > > > Error: Argument "dbtype". Mandatory value is missing: `String, > `nucl', `prot'' > > Error: (CArgException::eNoArg) Argument "dbtype". Mandatory value is > missing: `String, `nucl', `prot'' > > Program failed, try executing the command manually. > > Makefile:606: recipe for target 'dataset_201401/MFO/goasp.fasta.psq' > failed > > make[1]: *** [dataset_201401/MFO/goasp.fasta.psq] Error 1 > > make[1]: *** Waiting for unfinished jobs.... > > USAGE > > makeblastdb [-h] [-help] [-in input_file] [-input_type type] > > -dbtype molecule_type [-title database_title] [-parse_seqids] > > [-hash_index] [-mask_data mask_data_files] [-mask_id mask_algo_ids] > > [-mask_desc mask_algo_descriptions] [-gi_mask] > > [-gi_mask_name gi_based_mask_names] [-out database_name] > > [-max_file_sz number_of_bytes] [-logfile File_Name] [-taxid TaxID] > > [-taxid_map TaxIDMapFile] [-version] > > > > DESCRIPTION > > Application to create BLAST databases, version 2.5.0+ > > > > Use '-help' to print detailed descriptions of command line arguments > > > ======================================================================== > > > > Error: Argument "dbtype". Mandatory value is missing: `String, > `nucl', `prot'' > > Error: (CArgException::eNoArg) Argument "dbtype". Mandatory value is > missing: `String, `nucl', `prot'' > > Program failed, try executing the command manually. > > Makefile:606: recipe for target 'dataset_201401/BPO/goasp.fasta.psq' > failed > > make[1]: *** [dataset_201401/BPO/goasp.fasta.psq] Error 1 > > USAGE > > makeblastdb [-h] [-help] [-in input_file] [-input_type type] > > -dbtype molecule_type [-title database_title] [-parse_seqids] > > [-hash_index] [-mask_data mask_data_files] [-mask_id mask_algo_ids] > > [-mask_desc mask_algo_descriptions] [-gi_mask] > > [-gi_mask_name gi_based_mask_names] [-out database_name] > > [-max_file_sz number_of_bytes] [-logfile File_Name] [-taxid TaxID] > > [-taxid_map TaxIDMapFile] [-version] > > > > DESCRIPTION > > Application to create BLAST databases, version 2.5.0+ > > > > Use '-help' to print detailed descriptions of command line arguments > > > ======================================================================== > > > > Error: Argument "dbtype". Mandatory value is missing: `String, > `nucl', `prot'' > > Error: (CArgException::eNoArg) Argument "dbtype". Mandatory value is > missing: `String, `nucl', `prot'' > > Program failed, try executing the command manually. > > Makefile:606: recipe for target 'dataset_201401/CCO/goasp.fasta.psq' > failed > > make[1]: *** [dataset_201401/CCO/goasp.fasta.psq] Error 1 > > make[1]: Leaving directory '«BUILDDIR»' > > dh_auto_build: make -j9 returned exit code 2 > > debian/rules:8: recipe for target 'build' failed > > make: *** [build] Error 2 > > dpkg-buildpackage: error: debian/rules build gave error exit status 2 > > > > […] > > > > The full build log is attached. > > > > > > Regards, > > > > -- > > ,''`. > > : :' : Chris Lamb > > `. `'` la...@debian.org / chris-lamb.co.uk > > `- > > > > _______________________________________________ > > Debian-med-packaging mailing list > > debian-med-packag...@lists.alioth.debian.org > > > http://lists.alioth.debian.org/cgi-bin/mailman/listinfo/debian-med-packaging > > > -- > http://fam-tille.de >