Mercurial > repos > fubar > tool_factory_2
changeset 77:1fa49a9a4ec5 draft
Uploaded
| author | fubar |
|---|---|
| date | Mon, 16 Nov 2020 23:24:05 +0000 |
| parents | 46db8143adb7 |
| children | 89aca6c67405 |
| files | toolfactory/rgToolFactory2.xml toolfactory/testtf.sh toolfactory/whoosh.sh |
| diffstat | 3 files changed, 4 insertions(+), 23 deletions(-) [+] |
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--- a/toolfactory/rgToolFactory2.xml Mon Nov 16 02:42:49 2020 +0000 +++ b/toolfactory/rgToolFactory2.xml Mon Nov 16 23:24:05 2020 +0000 @@ -132,11 +132,10 @@ </macros> <requirements> - <requirement type="package">galaxyxml</requirement> - <requirement type="package">bioblend</requirement> - <requirement type="package">planemo</requirement> - <container type="docker">quay.io/fubar2/toolfactorybiocontainer</container> -</requirements> + <!--<requirement type="package" version="3.8.5" >python</requirement>--> + <requirement type="package" version="0.72.0" >planemo</requirement> + <requirement type="package" version="0.4.11" >galaxyxml</requirement> +</requirements></requirements> <command ><![CDATA[ #import os
--- a/toolfactory/testtf.sh Mon Nov 16 02:42:49 2020 +0000 +++ /dev/null Thu Jan 01 00:00:00 1970 +0000 @@ -1,2 +0,0 @@ -planemo test --no_cleanup --no_dependency_resolution --skip_venv --galaxy_root ~/galaxy ~/galaxy/tools/tool_makers/toolfactory &>foo -
--- a/toolfactory/whoosh.sh Mon Nov 16 02:42:49 2020 +0000 +++ /dev/null Thu Jan 01 00:00:00 1970 +0000 @@ -1,16 +0,0 @@ -# using the galaxy venv this seems to work -. /galaxy_venv/bin/activate -python scripts/tool_shed/build_ts_whoosh_index.py -c config/tool_shed.yml --config-section tool_shed -# eeesh. /etc/galaxy is where the actual galaxy.yml lives - despite other configs being where they might be expected -# fix tool_shed.yml to 0.0.0.0 and admin email -# add tgz to datatypes :( -# need to source a venv in /export/tool_deps/toolfactorydeps/0.01/fubar/toolfactorydeps/9e9428fe9134/env.sh -# as nothing was done by the setup_virtualenv step apparently. -# gcc and friends for planemo pip installation -# File "/galaxy-central/lib/galaxy/tool_util/verify/interactor.py", line 595, in <listcomp> -# test_user = [user for user in all_users if user["email"] == email][0] -# add local to tool_sheds_conf.xml -# <tool_sheds> -# <tool_shed name="local" url="http://localhost:9009"/> -# mercurial > 5.5!! -