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Update to version 1.4.2
…remove_host processes.
* Dag files (#209) * move DAG JSON files to the resources directory * added manifest information to the `nextflow.config` file to allow for remote execution (#204) - Partial solve to #194 issue - Deprecation of the `manifest.config´ file * Set phred encoding when it fails to be determined - trimmomatic (#211) * fix bug publishdir (downsample_fastq component) * add pphred33 when encoding fails to be determined, if still fails retry with phred64 encoding (trimmomatic component) * Fix downsample (#222) * edited file names for downsample fastqs * stringified depth for file name
Codecov Report
@@ Coverage Diff @@
## dev #224 +/- ##
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- Coverage 42.34% 41.34% -1.01%
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Files 72 73 +1
Lines 6529 6584 +55
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- Hits 2765 2722 -43
- Misses 3764 3862 +98
Continue to review full report at Codecov.
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Codecov Report❌ Patch coverage is
Additional details and impacted files@@ Coverage Diff @@
## dev #224 +/- ##
==========================================
- Coverage 42.34% 41.34% -1.01%
==========================================
Files 72 73 +1
Lines 6529 6584 +55
==========================================
- Hits 2765 2722 -43
- Misses 3764 3862 +98 ☔ View full report in Codecov by Sentry. 🚀 New features to boost your workflow:
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This PR fixes the issues raised in #219. I've moved the problematic file from the bin folder and into templates, updating it to python3. I've also adjusted the components "remove_host" and "retrieve_mapped" to handle this template file.
This change is