Mercurial > repos > mbernt > singularity_scriptrunner

annotate tool-data/scripting_images.loc.sample @ 1:0da37b889932 draft default tip

Find changesets by keywords (author, files, the commit message), revision number or hash, or revset expression.
planemo upload for repository https://github.com/bernt-matthias/mb-galaxy-tools/tree/master/tools/scripting/ commit 5c71b60920e887c5fdb2c0ca0118927b1231bde7
author mbernt
date Sun, 06 Aug 2023 16:01:44 +0000
parents
children
Ignore whitespace changes - Everywhere: Within whitespace: At end of lines:
rev   line source
1
0da37b889932 planemo upload for repository https://github.com/bernt-matthias/mb-galaxy-tools/tree/master/tools/scripting/ commit 5c71b60920e887c5fdb2c0ca0118927b1231bde7
mbernt
parents:
diff changeset
1 # the following six tab separated columns need to be set
0da37b889932 planemo upload for repository https://github.com/bernt-matthias/mb-galaxy-tools/tree/master/tools/scripting/ commit 5c71b60920e887c5fdb2c0ca0118927b1231bde7
mbernt
parents:
diff changeset
2 #
0da37b889932 planemo upload for repository https://github.com/bernt-matthias/mb-galaxy-tools/tree/master/tools/scripting/ commit 5c71b60920e887c5fdb2c0ca0118927b1231bde7
mbernt
parents:
diff changeset
3 # id
0da37b889932 planemo upload for repository https://github.com/bernt-matthias/mb-galaxy-tools/tree/master/tools/scripting/ commit 5c71b60920e887c5fdb2c0ca0118927b1231bde7
mbernt
parents:
diff changeset
4 # a unique id to be used
0da37b889932 planemo upload for repository https://github.com/bernt-matthias/mb-galaxy-tools/tree/master/tools/scripting/ commit 5c71b60920e887c5fdb2c0ca0118927b1231bde7
mbernt
parents:
diff changeset
5 # name
0da37b889932 planemo upload for repository https://github.com/bernt-matthias/mb-galaxy-tools/tree/master/tools/scripting/ commit 5c71b60920e887c5fdb2c0ca0118927b1231bde7
mbernt
parents:
diff changeset
6 # name shown to the user
0da37b889932 planemo upload for repository https://github.com/bernt-matthias/mb-galaxy-tools/tree/master/tools/scripting/ commit 5c71b60920e887c5fdb2c0ca0118927b1231bde7
mbernt
parents:
diff changeset
7 # image_name
0da37b889932 planemo upload for repository https://github.com/bernt-matthias/mb-galaxy-tools/tree/master/tools/scripting/ commit 5c71b60920e887c5fdb2c0ca0118927b1231bde7
mbernt
parents:
diff changeset
8 # a path or URL to an image to use. Note that when using URLs
0da37b889932 planemo upload for repository https://github.com/bernt-matthias/mb-galaxy-tools/tree/master/tools/scripting/ commit 5c71b60920e887c5fdb2c0ca0118927b1231bde7
mbernt
parents:
diff changeset
9 # it images will be pulled on the fly to the job working dir
0da37b889932 planemo upload for repository https://github.com/bernt-matthias/mb-galaxy-tools/tree/master/tools/scripting/ commit 5c71b60920e887c5fdb2c0ca0118927b1231bde7
mbernt
parents:
diff changeset
10 # and the user executing the tools needs to take care of the
0da37b889932 planemo upload for repository https://github.com/bernt-matthias/mb-galaxy-tools/tree/master/tools/scripting/ commit 5c71b60920e887c5fdb2c0ca0118927b1231bde7
mbernt
parents:
diff changeset
11 # image cache.
0da37b889932 planemo upload for repository https://github.com/bernt-matthias/mb-galaxy-tools/tree/master/tools/scripting/ commit 5c71b60920e887c5fdb2c0ca0118927b1231bde7
mbernt
parents:
diff changeset
12 # interpreter
0da37b889932 planemo upload for repository https://github.com/bernt-matthias/mb-galaxy-tools/tree/master/tools/scripting/ commit 5c71b60920e887c5fdb2c0ca0118927b1231bde7
mbernt
parents:
diff changeset
13 # the interpreter that should be applied to the user supplied scripts
0da37b889932 planemo upload for repository https://github.com/bernt-matthias/mb-galaxy-tools/tree/master/tools/scripting/ commit 5c71b60920e887c5fdb2c0ca0118927b1231bde7
mbernt
parents:
diff changeset
14 # container_type
0da37b889932 planemo upload for repository https://github.com/bernt-matthias/mb-galaxy-tools/tree/master/tools/scripting/ commit 5c71b60920e887c5fdb2c0ca0118927b1231bde7
mbernt
parents:
diff changeset
15 # apptainer/singularity
0da37b889932 planemo upload for repository https://github.com/bernt-matthias/mb-galaxy-tools/tree/master/tools/scripting/ commit 5c71b60920e887c5fdb2c0ca0118927b1231bde7
mbernt
parents:
diff changeset
16 # container_params
0da37b889932 planemo upload for repository https://github.com/bernt-matthias/mb-galaxy-tools/tree/master/tools/scripting/ commit 5c71b60920e887c5fdb2c0ca0118927b1231bde7
mbernt
parents:
diff changeset
17 # parameters to be passed to singularity/apptainer
0da37b889932 planemo upload for repository https://github.com/bernt-matthias/mb-galaxy-tools/tree/master/tools/scripting/ commit 5c71b60920e887c5fdb2c0ca0118927b1231bde7
mbernt
parents:
diff changeset
18 # --cleanenv --network none --no-mount bind-paths --cpus "\${GALAXY_SLOTS:-1}"
0da37b889932 planemo upload for repository https://github.com/bernt-matthias/mb-galaxy-tools/tree/master/tools/scripting/ commit 5c71b60920e887c5fdb2c0ca0118927b1231bde7
mbernt
parents:
diff changeset
19 #
0da37b889932 planemo upload for repository https://github.com/bernt-matthias/mb-galaxy-tools/tree/master/tools/scripting/ commit 5c71b60920e887c5fdb2c0ca0118927b1231bde7
mbernt
parents:
diff changeset
20 # <id>\t<name>\t<image_name>\t<interpreter>\t<container_type>\t<container_params>