EBI-Metagenomics pipeline-v5 issues

EBI-Metagenomics / pipeline-v5

This repository contains all CWL descriptions of the MGnify pipeline version 5.0.

https://www.ebi.ac.uk/metagenomics/

Apache License 2.0

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issues

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typo in awk-tool?

#61 RZ9082 closed 1 year ago
2
ribosomal_models not available

#60 paulzierep opened 1 year ago
3
Taxonomic summary output

#59 cymon closed 1 year ago
2
for CWL v1.2, use final version number, not -devN

#58 mr-c closed 1 year ago
0
Merging lr-support

#57 caballero closed 1 year ago
1
PR to sync develop branch with master

#56 caballero closed 2 years ago
0
Fix eggnogg.cwl, min memory and diamond not-needed params

#55 mberacochea closed 2 years ago
0
One more fix

#54 mberacochea closed 2 years ago
0
Fix emapper_wrapper...

#53 mberacochea closed 2 years ago
0
v5 eggnog performance improvement.

#52 mberacochea closed 2 years ago
0
Feature/lr assembly

#51 caballero closed 2 years ago
1
Feature/lr assembly

#50 caballero closed 2 years ago
1
Port https://github.com/EBI-Metagenomics/pipeline-v5/pull/48

#49 mberacochea closed 2 years ago
1
conditional qc and rna prediction with pipeline execution script

#48 Vkale1 closed 2 years ago
2
Go Slim Banding IDs

#47 ucabuk closed 2 years ago
4
Several build_assembly_gff fixes

#46 mberacochea closed 2 years ago
0
During scripts collection make them group exec.

#45 mberacochea closed 2 years ago
0
Running this pipeline

#44 evilvenom closed 2 years ago
1
A few fixes:

#43 mberacochea closed 2 years ago
0
Fix dockers

#42 mberacochea closed 3 years ago
0
Some minor adjustments, mostly needed to run the pipeline in Codon

#41 mberacochea closed 3 years ago
0
CODON migration changes.

#40 mberacochea closed 3 years ago
0
supporting FGS protein predictions in GFF building

#39 caballero closed 3 years ago
1
Fix antismash_to_gff, it was producing an incorrect output

#38 mberacochea closed 3 years ago
1
Fix antismash_to_gff, it was producing an incorrect output

#37 mberacochea closed 3 years ago
1
Update envs

#36 KateSakharova opened 3 years ago
2
Refseq db

#35 Mohamedema closed 2 years ago
1
Final fixes for docker version of pipeline-v5

#34 KateSakharova closed 3 years ago
1
Improve filtering

#33 KateSakharova closed 4 years ago
0
Bugfix result chunker

#32 KateSakharova closed 3 years ago
1
Some fixes for SeqPrep filtering sub-wf

#31 KateSakharova closed 4 years ago
1
Docker support

#30 KateSakharova closed 3 years ago
1
Bug with chunking run_result_file_chunker.py

#29 amkibriya closed 4 years ago
6
Fix seqprep

#28 KateSakharova closed 4 years ago
0
Fix cmsearch

#27 KateSakharova closed 4 years ago
0
Fixes for databases paths formats

#26 KateSakharova closed 4 years ago
0
Protein assign

#25 KateSakharova closed 3 years ago
1
Fix final chunking

#24 KateSakharova closed 4 years ago
0
Docker and CWL databases type "string"

#23 mberacochea opened 4 years ago
3
Refactor docker files

#22 mberacochea closed 4 years ago
1
A number of typos/bugs with suggestions for some

#21 amkibriya closed 4 years ago
7
No cds

#20 KateSakharova closed 4 years ago
0
add ko descriptions

#19 Vkale1 closed 4 years ago
0
Fix antismash gff generation script.

#18 mberacochea closed 4 years ago
0
AntiSmash to gff - refactor.

#17 mberacochea closed 4 years ago
1
Fix gff

#16 KateSakharova closed 4 years ago
0
Hack antismash

#15 KateSakharova closed 4 years ago
0
Merge rebuild dockers

#14 KateSakharova closed 4 years ago
0
Fix hmmer

#13 KateSakharova closed 4 years ago
0
File missing & Output parameter missing

#12 Rradley closed 4 years ago
2