| Previous changeset 8:eebc0adefae0 (2018-06-11) Next changeset 10:124e64eea35b (2018-06-11) |
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Commit message:
Fix resource update |
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modified:
tool_dependencies.xml |
| b |
| diff -r eebc0adefae0 -r 4088332e198a tool_dependencies.xml --- a/tool_dependencies.xml Mon Jun 11 12:41:24 2018 -0400 +++ b/tool_dependencies.xml Mon Jun 11 12:54:12 2018 -0400 |
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| @@ -4,7 +4,7 @@ <install version="1.0"> <actions> <action type="download_by_url" target_filename="kggseq_archive-v1.0_20180410.tar.gz">https://github.com/crs4/kggseq_archive/archive/v1.0_20180410.tar.gz</action> - <action type="shell_command">java -jar kggseq.jar --no-lib-check --resource resources --buildver hg19 --db-filter 1kgeur201305,1kgeas201305,1kgafr201305,1kgsas201305,1kgamr201305,1kg201305,1kg201204,1kgafr201204,1kgeur201204,1kgamr201204,1kgasn201204,dbsnp135,dbsnp137,dbsnp138,dbsnp138nf,dbsnp141,ESP6500AA,ESP6500EA,exac,gadexome,gadgenome --genome-annot --db-gene refgene,gencode,knowngene,ensembl --db-score dbnsfp --superdup-annot --cosmic-annot --omim-annot --scsnv-annot --mouse-pheno --zebrafish-pheno --ddd-annot --mendel-causing-predict best --patho-gene-predict --dgv-cnv-annot --o-flanking-seq 10 --vcf-file examples-lite/rare.disease.hg19.vcf</action> + <action type="shell_command">java -jar kggseq.jar --no-lib-check --resource-update --resource resources --buildver hg19 --db-filter 1kgeur201305,1kgeas201305,1kgafr201305,1kgsas201305,1kgamr201305,1kg201305,1kg201204,1kgafr201204,1kgeur201204,1kgamr201204,1kgasn201204,dbsnp135,dbsnp137,dbsnp138,dbsnp138nf,dbsnp141,ESP6500AA,ESP6500EA,exac,gadexome,gadgenome --genome-annot --db-gene refgene,gencode,knowngene,ensembl --db-score dbnsfp --superdup-annot --cosmic-annot --omim-annot --scsnv-annot --mouse-pheno --zebrafish-pheno --ddd-annot --mendel-causing-predict best --patho-gene-predict --dgv-cnv-annot --o-flanking-seq 10 --vcf-file examples-lite/rare.disease.hg19.vcf</action> <action type="move_directory_files"> <source_directory>.</source_directory> <destination_directory>$INSTALL_DIR</destination_directory> |