Mercurial > repos > lecorguille > xcms_xcmsset

comparison planemo_test.sh @ 8:53923784176c draft

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planemo upload for repository https://github.com/workflow4metabolomics/xcms commit 960f403303e1691bdd6137c46895feb333b36a82
author lecorguille
date Mon, 04 Jul 2016 08:45:48 -0400
parents 451ff602a957
children
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7:451ff602a957 8:53923784176c
1 # Example of planemo command to launch test 1 # Example of planemo command to launch test
2
3 # Note: --galaxy_branch "dev" is set to deal with zip file
4 2
5 3
6 # -- Use of installed package environments 4 # -- Use of installed package environments
7 # after having installing package on a local galaxy instance 5 # after having installing package on a local galaxy instance
8 source /w/galaxy/dev/shed_tools_tool_dependency_dir/R/3.1.2/iuc/package_r_3_1_2/1ca39eb16186/env.sh 6 source /w/galaxy/dev/shed_tools_tool_dependency_dir/R/3.1.2/iuc/package_r_3_1_2/1ca39eb16186/env.sh
9 source /w/galaxy/dev/shed_tools_tool_dependency_dir/bioconductor-xcms/1.44.0/lecorguille/package_bioconductor_xcms_1_44_0/0c38f7d43e08/env.sh 7 source /w/galaxy/dev/shed_tools_tool_dependency_dir/bioconductor-xcms/1.44.0/lecorguille/package_bioconductor_xcms_1_44_0/0c38f7d43e08/env.sh
10 planemo test --install_galaxy --galaxy_branch "dev" 8 planemo test --install_galaxy
11 9
12 #All 2 test(s) executed passed. 10 #All 2 test(s) executed passed.
13 #abims_xcms_xcmsSet[0]: passed 11 #abims_xcms_xcmsSet[0]: passed
14 #abims_xcms_xcmsSet[1]: passed 12 #abims_xcms_xcmsSet[1]: passed
15 13
16 14
17 # -- Use of conda dependencies 15 # -- Use of conda dependencies
18 planemo conda_init --conda_prefix /tmp/mc 16 planemo conda_init --conda_prefix /tmp/mc
19 planemo conda_install --conda_prefix /tmp/mc . 17 planemo conda_install --conda_prefix /tmp/mc .
20 planemo test --install_galaxy --conda_prefix /tmp/mc --conda_dependency_resolution --galaxy_branch "dev" 18 planemo test --install_galaxy --conda_prefix /tmp/mc --conda_dependency_resolution
21 19
22 #All 2 test(s) executed passed. 20 #All 2 test(s) executed passed.
23 #abims_xcms_xcmsSet[0]: passed 21 #abims_xcms_xcmsSet[0]: passed
24 #abims_xcms_xcmsSet[1]: passed 22 #abims_xcms_xcmsSet[1]: passed
25 23
26 24
27 # -- Use of shed_test 25 # -- Use of shed_test
28 planemo shed_test --install_galaxy -t testtoolshed --galaxy_branch ="dev" 26 planemo shed_test --install_galaxy -t testtoolshed
29 27
30 #All 2 test(s) executed passed. 28 #All 2 test(s) executed passed.
31 #testtoolshed.g2.bx.psu.edu/repos/lecorguille/xcms_group/abims_xcms_xcmsset/2.0.8[0]: passed 29 #testtoolshed.g2.bx.psu.edu/repos/lecorguille/xcms_group/abims_xcms_xcmsset/2.0.8[0]: passed
32 #testtoolshed.g2.bx.psu.edu/repos/lecorguille/xcms_group/abims_xcms_xcmsset/2.0.8[1]: passed 30 #testtoolshed.g2.bx.psu.edu/repos/lecorguille/xcms_group/abims_xcms_xcmsset/2.0.8[1]: passed
33 31