Version 2.1.0
What's Changed
Full Changelog: 2.0.0...2.1.0
Added
- Created summary presence/absence tables for NCBI FCS modules #88
- Added min. system requirements #91
- Added a test to verify the fix for the bug which resulted in a pipeline crash for assemblies without LTRs
- Updated NCBI FCS GX to 0.5.4 #93
- Updated
SYRI
to 1.7.0 #104 - Added a script to automatically check for updates on GitHub/GitLab and post issues
- Updated modules:
UNTAR
,MERYL_COUNT
,GUNZIP
,MINIMAP2_ALIGN
,FASTQC
Fixed
- Fixed a bug where
intron_length_distribution
was used instead ofcds_length_distribution
when creating the CDS Length Distribution Graph #95 - Fixed a bug where 'Subsequent pipeline modules are skipped.' was printed in the
report.html
even whencontamination_stops_pipeline
was set to false - Now NCBI FCS GX module uses all the cores available from the Nextflow task
- Fixed a bug which caused
PLOTSR
to fail for certain assembly names #102 - Now
LTRRETRIEVER_LTRRETRIEVER
does not crash when the input assembly does not contain any LTRs #92 - Now
LTRRETRIEVER_LTRRETRIEVER
does not crash when the input assembly is not writable #98 - Now soft masked regions are unmasked before computing LAI #117
- Fixed a bug in
ASSEMBLATHON_STATS
which caused it to fail on MMC executor due to multiple binds of thebin
directory - Changed
NextFlow
toNextflow
- Updated citation to Bioinformatics
Dependencies
- Nextflow!>=23.04.0
- [email protected]
Deprecated
- Changed default branch name from
master
tomain
in nf-core template files - Moved
version_check.sh
to.github/version_checks.sh
- Moved
docs/contributors.sh
to.github/contributors.sh
- Removed dependency on https://github.com/PlantandFoodResearch/nxf-modules.git
- Replaced
nf-core/fastq_trim_fastp_fastqc
withnf-core/fastq_fastqc_umitools_fastp
which has nf-test unit tests - Removed version check on README.md