Hi Aaron,
I guess that's due to the new version of ncbi-tools+. Any suggested
patch for this problem?
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
> `-
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