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v3.2.0 #38

Merged
merged 41 commits into from
Mar 26, 2021
Merged

v3.2.0 #38

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a84fe11
Add preferred transcripts parameter
rernst Jul 21, 2020
d691767
Add metadata.
rernst Sep 2, 2020
80f4151
Add sample_type to run().
rernst Sep 10, 2020
dabe313
Allow partial sample name to search samples
rernst Oct 2, 2020
88c3227
Fix sample upload.
rernst Jan 6, 2021
0461477
Add Minimal % 15x edit to panel forms
rernst Jan 6, 2021
dfd50ef
Add panel edit page (metadata) and update panel verion update page.
rernst Jan 6, 2021
68d871c
Show cov req when creating new panel.
rernst Jan 7, 2021
1fb0ddc
Add event logger for panel + panel_version models
rernst Feb 9, 2021
5426353
Fix eventlogger.
rernst Feb 9, 2021
0d837f7
Update sample_projects type
rernst Feb 9, 2021
9485995
Update clinical contacts field
rernst Feb 9, 2021
9ae1630
Create random sample set, sovles #22
rernst Feb 9, 2021
a6f64ec
Replace json with txt as column type
rernst Feb 9, 2021
31d04e1
Add core gene model and edit pages.
rernst Feb 19, 2021
e84b52b
Update QC colors, use panel cov req and core gene
rernst Feb 19, 2021
51e55e7
Don't cleanup transcripts or panel
rernst Feb 19, 2021
72e1c9a
Join core genes
rernst Feb 19, 2021
339969a
Merge multiple model imports.
rernst Feb 22, 2021
03ff344
Remove trailing space
rernst Feb 22, 2021
548a10c
Explain disabled LoadDesign function.
rernst Feb 22, 2021
a3cc2b3
Update based on review comments
rernst Feb 22, 2021
ea267b8
Merge pull request #36 from UMCUGenetics/metadata
rernst Feb 22, 2021
6426a80
Add min input length, Fix #28
rernst Feb 22, 2021
a83254c
Add Panel/Gene search to sampleset view, solve #24
rernst Feb 24, 2021
acd71bd
Update form label
rernst Feb 25, 2021
7430160
Update sampleset cli to skip merge samples.
rernst Mar 2, 2021
e913052
Open samplesets to all users.
rernst Mar 2, 2021
81da31a
Disable validate if panel_version is validated.
rernst Mar 5, 2021
1e4619a
Add supress_none jinja2 filter.
rernst Mar 5, 2021
7686877
Add info about setting up a new(dev) db.
rernst Mar 5, 2021
001d134
Fix validate update
rernst Mar 5, 2021
afff545
Fix typo.
rernst Mar 11, 2021
e571a2a
Consistent naming of PanelNewVersionForm
rernst Mar 11, 2021
bc9afdb
Consitent tabs
rernst Mar 11, 2021
4533429
Remove unused macro
rernst Mar 11, 2021
0abab20
Add new line at end of file
rernst Mar 11, 2021
5484c29
Update gene list description.
rernst Mar 11, 2021
e1097bd
Update Sample set label
rernst Mar 11, 2021
619f59e
Update code layout
rernst Mar 12, 2021
532a605
Remove duplicate space.
rernst Mar 12, 2021
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3 changes: 2 additions & 1 deletion ExonCov/cli.py
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Original file line number Diff line number Diff line change
Expand Up @@ -134,7 +134,8 @@ def run(self, project_name, sample_type, bam, exon_bed_file, threads, overwrite,
sample_project, sample_project_exists = utils.get_one_or_create(
db.session,
SampleProject,
name=project_name
name=project_name,
type=''
) # returns object and exists bool
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# Look for sample in database
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