diff --git a/CHANGELOG.md b/CHANGELOG.md index 1c69625f20..495fc9fea6 100644 --- a/CHANGELOG.md +++ b/CHANGELOG.md @@ -14,6 +14,7 @@ and this project adheres to [Semantic Versioning](http://semver.org/spec/v2.0.0. - [#679](https://github.com/SciLifeLab/Sarek/pull/679) - Add container for `CreateIntervalBeds` - [#692](https://github.com/SciLifeLab/Sarek/pull/692), [#697](https://github.com/SciLifeLab/Sarek/pull/697) - Add AWS iGenomes possibilities (within `conf/igenomes.conf`) - [#694](https://github.com/SciLifeLab/Sarek/pull/694) - Add monochrome and grey logos for light or dark background +- [#702](https://github.com/SciLifeLab/Sarek/pull/702) - Add font-ttf-dejavu-sans-mono `2.37` and fontconfig `2.12.6` to container ### `Changed` @@ -23,12 +24,14 @@ and this project adheres to [Semantic Versioning](http://semver.org/spec/v2.0.0. - [#677](https://github.com/SciLifeLab/Sarek/pull/677) - Update docs - [#679](https://github.com/SciLifeLab/Sarek/pull/679) - Update old awsbatch configuration - [#693](https://github.com/SciLifeLab/Sarek/pull/693) - Qualimap bamQC is now ran after mapping and after recalibration for better QC +- [#702](https://github.com/SciLifeLab/Sarek/pull/702) - update FastQC to `0.11.8` ### `Fixed` - [#665](https://github.com/SciLifeLab/Sarek/pull/665) - Input bam file now has always the same name (whether it is from a single fastq pair or multiple) in the MarkDuplicates process, so metrics too - [#672](https://github.com/SciLifeLab/Sarek/pull/672) - process `PullSingularityContainers` from `buildContainers.nf` now expect a file with the correct `.simg` extension for singularity images, and no longer the `.img` one. - [#679](https://github.com/SciLifeLab/Sarek/pull/679) - Add publishDirMode for `germlineVC.nf` +- [#702](https://github.com/SciLifeLab/Sarek/pull/702) - Fix [#701](https://github.com/SciLifeLab/Sarek/issues/701) ## [2.2.1] - 2018-10-04 diff --git a/environment.yml b/environment.yml index c2546d6976..504edc6f4b 100644 --- a/environment.yml +++ b/environment.yml @@ -9,7 +9,9 @@ channels: dependencies: - bcftools=1.8 - bwa=0.7.17 - - fastqc=0.11.7 + - fastqc=0.11.8 + - font-ttf-dejavu-sans-mono=2.37 #for FastQC + - fontconfig=2.12.6 #for FastQC - freebayes=1.2.0 - gatk4=4.0.6.0 - htslib=1.9