UofS-Pulse-Binfo genotypes_loader issues

UofS-Pulse-Binfo / genotypes_loader

A Drush-based loader for VCF files that follows the genotype storage rules outlined by ND genotypes.

GNU General Public License v2.0

1 stars 2 forks source link

issues

Newest

Newest Most commented Recently updated Oldest Least commented Least recently updated

Bump guzzlehttp/psr7 from 1.9.0 to 1.9.1

#62 dependabot[bot] closed 1 year ago
0
Could not find germplasm type 'accession' with the vocabulary 'GCP germplasm'

#61 risharde opened 1 year ago
1
Bump guzzlehttp/guzzle from 6.5.7 to 6.5.8

#60 dependabot[bot] closed 2 years ago
0
Bump guzzlehttp/guzzle from 6.5.6 to 6.5.7

#59 dependabot[bot] closed 2 years ago
0
Bump guzzlehttp/guzzle from 6.5.2 to 6.5.6

#58 dependabot[bot] closed 2 years ago
1
Update phpunit.yml

#57 laceysanderson closed 2 years ago
0
Bump guzzlehttp/psr7 from 1.6.1 to 1.8.5

#56 dependabot[bot] closed 2 years ago
1
PDOException: SQLSTATE[23502]: Not null violation: 7 ERROR: null value in column "type_id" violates not-null constraint

#55 cornellyujy opened 2 years ago
6
loading sample.vcf and samples.list

#54 cornellyujy closed 2 years ago
6
Loading Somatic data

#53 Xaiku closed 3 years ago
4
Implements GiHub Actions

#52 reynoldtan closed 3 years ago
0
Remove nd_genotypes from genotypes loader.

#51 laceysanderson closed 3 years ago
0
Chromosome error

#50 Xaiku closed 3 years ago
6
Prep for Badge Request

#49 laceysanderson closed 3 years ago
0
Preparing for Tripal Badge Request

#48 laceysanderson opened 3 years ago
0
Add project => marker link

#47 laceysanderson closed 4 years ago
1
Link markers to the project using the chado project_feature table

#46 carolyncaron closed 4 years ago
1
Allow PostgreSQL version 10.x and up

#45 carolyncaron closed 5 years ago
0
Projects require a genus property

#44 bradfordcondon opened 5 years ago
0
Change sample files to correspond to default Tripal terms

#43 laceysanderson closed 3 years ago
1
Update README.md

#42 laceysanderson closed 5 years ago
0
Add cvterms to install file

#41 laceysanderson closed 5 years ago
0
Add basic test to run the loader for VCF on the cats sample file

#40 laceysanderson closed 5 years ago
0
Prioritize VCF "ID" field for variant and marker names.

#39 carolyncaron closed 5 years ago
0
Parsing variant name from VCF ID column

#38 songtaogui closed 5 years ago
6
error inserting sample data

#37 bradfordcondon closed 3 years ago
1
readme says is_marker_of is from stock_relationship but its feature_relationship

#36 bradfordcondon closed 5 years ago
1
add terms necessary for module

#35 bradfordcondon closed 5 years ago
3
why arent required cv terms inserted on install?

#34 bradfordcondon closed 5 years ago
1
suggestion: example in the readme should use files in the example file folder

#33 bradfordcondon closed 5 years ago
2
Fixes the regex that checks postgresql version to not assume 9.x

#32 carolyncaron closed 5 years ago
0
Updated the metadata regex to also match floating points

#31 carolyncaron closed 5 years ago
0
Prepare for First release and Tripal Badge

#30 Jiu9Shen closed 3 years ago
2
Floating point values are ignored for metadata insertion from a VCF

#29 carolyncaron closed 5 years ago
0
Variant type storage added

#28 carolyncaron closed 5 years ago
0
Error reported with psql 10+

#27 bradfordcondon closed 4 years ago
8
Added README to the documentation.

#26 laceysanderson closed 5 years ago
0
Documentation stub

#25 laceysanderson closed 5 years ago
0
Official Documentation for release

#24 laceysanderson closed 3 years ago
4
Bug: cannot insert genotype

#23 laceysanderson closed 5 years ago
2
Initialized TripalTestSuite

#22 carolyncaron closed 5 years ago
0
Variant Types are currently not being stored.

#21 laceysanderson closed 5 years ago
0
Allow the user to set the copy chunk size through the settings form

#20 carolyncaron opened 6 years ago
0
Improvements to speed by inserting genotype calls via /COPY

#19 carolyncaron closed 6 years ago
1
Added ability to handle mutliple organisms + different germplasm types

#18 carolyncaron closed 6 years ago
2
Handle PostgreSQL v9.3 and up, provide an error if under 9.3

#17 carolyncaron closed 6 years ago
0
Limit to support for PostgreSQL 9.3+

#16 carolyncaron closed 6 years ago
1
Expand the Settings Form to pull CV terms from different Controlled Vocabularies

#15 carolyncaron opened 6 years ago
1
Changed module dependency from tripal_core to tripal

#14 carolyncaron closed 6 years ago
0
Determine genotype call from PL field in VCF files

#13 carolyncaron opened 7 years ago
0