Mercurial > repos > frogs > frogs
comparison planemo_test.sh @ 0:834843ebe569 draft
"planemo upload for repository https://github.com/geraldinepascal/FROGS-wrappers/tree/v3.2.2 commit 6150f59723cf8b0d3c0a2e35208078473f0ec5cf"
author | frogs |
---|---|
date | Thu, 08 Apr 2021 14:30:48 +0000 |
parents | |
children |
comparison
equal
deleted
inserted
replaced
-1:000000000000 | 0:834843ebe569 |
---|---|
1 #!/bin/sh | |
2 | |
3 mkdir -p planemo_test | |
4 | |
5 ####################################################################################################### | |
6 # TEST LA STRUCTURE | |
7 for i in *.xml | |
8 do | |
9 echo $i | |
10 planemo lint $i > planemo_test/`basename $i |sed 's/\.xml//'`.lint.log 2>&1 | |
11 done | |
12 | |
13 grep Failed planemo_test/*.lint.log | |
14 | |
15 ####################################################################################################### | |
16 # VALIDE L'EXECUTION | |
17 for i in ` ls *.xml | grep -vE 'demultiplexe|preprocess|clustering|remove_chimera'` | |
18 do | |
19 echo $i | |
20 planemo test --no_cleanup $i > planemo_test/`basename $i |sed 's/\.xml//'`.test.log 2>&1 | |
21 done | |
22 | |
23 grep FAILED planemo_test/*test.log | |
24 | |
25 | |
26 grep "test(s) executed passed" planemo_test/*test.log | |
27 | |
28 # planemo_test/preprocess.test.log:All 2 test(s) executed passed. | |
29 | |
30 | |
31 # remote: warning: File test-data/references/01-prepro-flash.fasta is 95.81 MB; this is larger than GitHub's recommended maximum file size of 50.00 MB | |
32 # remote: error: File test-data/references/02-clustering_fastidious.fasta is 109.85 MB; this exceeds GitHub's file size limit of 100.00 MB | |
33 # remote: error: File test-data/references/01-prepro-vsearch.fasta is 121.32 MB; this exceeds GitHub's file size limit of 100.00 MB | |
34 # remote: error: File test-data/references/02-clustering_denoising.fasta is 108.50 MB; this exceeds GitHub's file size limit of 100.00 MB | |
35 # remote: error: File test-data/references/03-chimera.fasta is 109.85 MB; this exceeds GitHub's file size limit of 100.00 MB | |
36 | |
37 | |
38 ####################################################################################################### | |
39 # TEST SOUS GALAXY | |
40 | |
41 ####################################################################################################### | |
42 # SOUMISSION AU TOOLSHED |