Mercurial > repos > petr-novak > repeatexplorer2_testing

comparison repex_tarean.xml @ 11:1d1dc045695e draft

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author petr-novak
date Thu, 27 Jul 2023 08:35:12 +0000
parents ffe53359f758
children a205a0b8963a
comparison
equal deleted inserted replaced
10:3c121bee9253 11:1d1dc045695e
32 /opt/repex_tarean/stderr_filter.py stderr.log && 32 /opt/repex_tarean/stderr_filter.py stderr.log &&
33 cd tarean_output && 33 cd tarean_output &&
34 zip -r ${ReportArchive}.zip * && 34 zip -r ${ReportArchive}.zip * &&
35 mv ${ReportArchive}.zip ${ReportArchive} && 35 mv ${ReportArchive}.zip ${ReportArchive} &&
36 cp index.html ${ReportFile} && 36 cp index.html ${ReportFile} &&
37 mkdir ${ReportFile.files_path} && 37 mkdir -p ${ReportFile.extra_files_path} &&
38 cp -r --parents libdir ${ReportFile.files_path} && 38 cp -r --parents libdir ${ReportFile.extra_files_path} &&
39 cp -r --parents seqclust/clustering/superclusters ${ReportFile.files_path} && 39 cp -r --parents seqclust/clustering/superclusters ${ReportFile.extra_files_path} &&
40 cp -r --parents seqclust/clustering/clusters ${ReportFile.files_path} && 40 cp -r --parents seqclust/clustering/clusters ${ReportFile.extra_files_path} &&
41 cp seqclust/clustering/hitsort.cls ${ReportFile.files_path}/seqclust/clustering/hitsort.cls && 41 cp seqclust/clustering/hitsort.cls ${ReportFile.extra_files_path}/seqclust/clustering/hitsort.cls &&
42 cp *.png ${ReportFile.files_path}/ && 42 cp *.png ${ReportFile.extra_files_path}/ &&
43 cp *.csv ${ReportFile.files_path}/ && 43 cp *.csv ${ReportFile.extra_files_path}/ &&
44 cp *.html ${ReportFile.files_path}/ && 44 cp *.html ${ReportFile.extra_files_path}/ &&
45 cp *.css ${ReportFile.files_path}/ && 45 cp *.css ${ReportFile.extra_files_path}/ &&
46 cp *.fasta ${ReportFile.files_path}/ 2>>$log && rm -r ../tarean_output || : 46 cp *.fasta ${ReportFile.extra_files_path}/ 2>>$log && rm -r ../tarean_output || :
47 47
48 48
49 </command> 49 </command>
50 50
51 <inputs> 51 <inputs>