Skip to content
GitLab
Explore
Sign in
Register
Primary navigation
Search or go to…
Project
gga_load_data
Manage
Activity
Members
Labels
Plan
Issues
12
Issue boards
Milestones
Wiki
Code
Merge requests
5
Repository
Branches
Commits
Tags
Repository graph
Compare revisions
Snippets
Build
Pipelines
Jobs
Pipeline schedules
Artifacts
Deploy
Releases
Container Registry
Model registry
Operate
Environments
Monitor
Incidents
Analyze
Value stream analytics
Contributor analytics
CI/CD analytics
Repository analytics
Model experiments
Help
Help
Support
GitLab documentation
Compare GitLab plans
Community forum
Contribute to GitLab
Provide feedback
Keyboard shortcuts
?
Snippets
Groups
Projects
Show more breadcrumbs
abims
e-infra
gga_load_data
Commits
58c3c821
Commit
58c3c821
authored
3 years ago
by
Arthur Le Bars
Browse files
Options
Downloads
Patches
Plain Diff
Fix for bioblend get_datasets method throwing ConnectionError
parent
ca829bee
No related branches found
Branches containing commit
No related tags found
Tags containing commit
2 merge requests
!47
v2.5.0
,
!34
WIP: blast and interpro workflow
Changes
2
Hide whitespace changes
Inline
Side-by-side
Showing
2 changed files
gga_run_workflow_phaeo_blast_interpro.py
+2
-2
2 additions, 2 deletions
gga_run_workflow_phaeo_blast_interpro.py
utilities_bioblend.py
+1
-0
1 addition, 0 deletions
utilities_bioblend.py
with
3 additions
and
2 deletions
gga_run_workflow_phaeo_blast_interpro.py
+
2
−
2
View file @
58c3c821
...
@@ -298,8 +298,8 @@ class RunWorkflowBlastInterpro(gga_run_workflow_phaeo.RunWorkflow):
...
@@ -298,8 +298,8 @@ class RunWorkflowBlastInterpro(gga_run_workflow_phaeo.RunWorkflow):
blastp_ldda_id
=
ldda_id
blastp_ldda_id
=
ldda_id
elif
ldda_name
.
endswith
(
self
.
blastx_filename
):
elif
ldda_name
.
endswith
(
self
.
blastx_filename
):
blastx_ldda_id
=
ldda_id
blastx_ldda_id
=
ldda_id
hda_list
=
self
.
instance
.
datasets
.
get_datasets
(
self
.
history_id
)
hda_list
=
self
.
instance
.
datasets
.
get_datasets
()
# Finding datasets in history (matching datasets names)
# Finding datasets in history (matching datasets names)
for
hda
in
hda_list
:
for
hda
in
hda_list
:
hda_name
=
hda
[
"
name
"
]
hda_name
=
hda
[
"
name
"
]
...
...
This diff is collapsed.
Click to expand it.
utilities_bioblend.py
+
1
−
0
View file @
58c3c821
...
@@ -150,6 +150,7 @@ def install_repository_revision(instance, tool_id, version, changeset_revision):
...
@@ -150,6 +150,7 @@ def install_repository_revision(instance, tool_id, version, changeset_revision):
install_repository_dependencies
=
False
,
install_repository_dependencies
=
False
,
install_resolver_dependencies
=
True
)
install_resolver_dependencies
=
True
)
def
install_workflow_tools
(
instance
,
workflow_path
):
def
install_workflow_tools
(
instance
,
workflow_path
):
"""
"""
Read a .ga file to extract the information about the different tools called.
Read a .ga file to extract the information about the different tools called.
...
...
This diff is collapsed.
Click to expand it.
Preview
0%
Loading
Try again
or
attach a new file
.
Cancel
You are about to add
0
people
to the discussion. Proceed with caution.
Finish editing this message first!
Save comment
Cancel
Please
register
or
sign in
to comment