This repository has been archived by the owner on Mar 17, 2023. It is now read-only.
Tools & Travis builds #14
Merged
Conversation
This file contains bidirectional Unicode text that may be interpreted or compiled differently than what appears below. To review, open the file in an editor that reveals hidden Unicode characters.
Learn more about bidirectional Unicode characters
Owner
giesselmann
commented
Jul 28, 2020
giesselmann
commented
- Rewrite and automate unit tests for source, Singularity and Docker
- Move Docker builds to travis-ci
- The all-in-one Docker has moved to docker://nanopype/nanopype
- Update Guppy to v4.0.11
- Update GraphMap to GraphMap2 v0.6.4
- Update Pychopper to v2.4.0
- Add wtdbg2 v2.5 (closes genome assembly #8)
- Add svim v1.4.0
- Improve and extend the tutorial
- Add contributions section
- Fix snakemake file exists error in case of raw data relative to workdir
- Fix Flappie basecalling "cat: methyl_marks.tsv: No such file or directory"
- Fix Flappie basecalling with fastq output
- Fix GraphMap and NGMLR index for .fasta extension (worked for .fa only)
- Fix methylation detection re-running in NGMLR workflow (fixes Second run of methylation analysis triggers alignment again #9)
- Fix single read methylation .bam for references with whitespace in name
added 30 commits
July 13, 2020 23:16
* Add Slurm profile * Move MXQ logs to a cluster log directory * Guppy * Save sequencing_summary.txt * Change shadow to minimal to really work in shadow directory * Change Guppy shadow to shallow
Threads as consumables Index reference fasta file Fixes #9
Configurable container in env.yaml
Add svim and wtdbg2
Sign up for free
to subscribe to this conversation on GitHub.
Already have an account?
Sign in.
Add this suggestion to a batch that can be applied as a single commit.
This suggestion is invalid because no changes were made to the code.
Suggestions cannot be applied while the pull request is closed.
Suggestions cannot be applied while viewing a subset of changes.
Only one suggestion per line can be applied in a batch.
Add this suggestion to a batch that can be applied as a single commit.
Applying suggestions on deleted lines is not supported.
You must change the existing code in this line in order to create a valid suggestion.
Outdated suggestions cannot be applied.
This suggestion has been applied or marked resolved.
Suggestions cannot be applied from pending reviews.
Suggestions cannot be applied on multi-line comments.
Suggestions cannot be applied while the pull request is queued to merge.
Suggestion cannot be applied right now. Please check back later.