Sofia Stamouli
|
953f9585c9
|
Update docs/output.md
Co-authored-by: James A. Fellows Yates <jfy133@gmail.com>
|
2023-01-11 16:47:18 +01:00 |
|
Sofia Stamouli
|
719fc3cf5d
|
Update docs/output.md
Co-authored-by: James A. Fellows Yates <jfy133@gmail.com>
|
2023-01-11 16:46:30 +01:00 |
|
Sofia Stamouli
|
18c15f8a78
|
Update docs/output.md
Co-authored-by: James A. Fellows Yates <jfy133@gmail.com>
|
2022-12-20 20:23:38 +01:00 |
|
Sofia Stamouli
|
fb9de1e212
|
Update docs/output.md
Co-authored-by: James A. Fellows Yates <jfy133@gmail.com>
|
2022-12-20 20:23:32 +01:00 |
|
Sofia Stamouli
|
8404c28d08
|
Review suggestion
Co-authored-by: James A. Fellows Yates <jfy133@gmail.com>
|
2022-12-20 20:23:26 +01:00 |
|
Sofia Stamouli
|
2e08c873a0
|
Apply review suggestion
Co-authored-by: James A. Fellows Yates <jfy133@gmail.com>
|
2022-12-20 17:34:19 +01:00 |
|
Sofia Stamouli
|
0cbd0a8013
|
Apply review suggestion
Co-authored-by: James A. Fellows Yates <jfy133@gmail.com>
|
2022-12-20 17:33:35 +01:00 |
|
Sofia Stamouli
|
af7468522a
|
Apply review suggestion
Co-authored-by: James A. Fellows Yates <jfy133@gmail.com>
|
2022-12-20 17:33:18 +01:00 |
|
Sofia Stamouli
|
964771c5f2
|
Update docs/output.md
Co-authored-by: James A. Fellows Yates <jfy133@gmail.com>
|
2022-12-20 17:33:04 +01:00 |
|
Sofia Stamouli
|
3c33ba66ca
|
Apply review suggestion
Co-authored-by: James A. Fellows Yates <jfy133@gmail.com>
|
2022-12-20 17:32:13 +01:00 |
|
Sofia Stamouli
|
af8fd18d97
|
Update docs/output.md
Co-authored-by: James A. Fellows Yates <jfy133@gmail.com>
|
2022-12-20 15:44:35 +01:00 |
|
Sofia Stamouli
|
b0a6bdee5a
|
Apply review suggestion
Co-authored-by: James A. Fellows Yates <jfy133@gmail.com>
|
2022-12-20 15:43:45 +01:00 |
|
Sofia Stamouli
|
c6710db7a9
|
Apply review suggestion
Co-authored-by: James A. Fellows Yates <jfy133@gmail.com>
|
2022-12-20 15:42:41 +01:00 |
|
Sofia Stamouli
|
d7c4554b18
|
Apply review suggestion
Co-authored-by: James A. Fellows Yates <jfy133@gmail.com>
|
2022-12-20 15:42:10 +01:00 |
|
Sofia Stamouli
|
3eb6a29fb0
|
Merge branch 'nf-core:dev' into update_output
|
2022-12-20 15:30:19 +01:00 |
|
James A. Fellows Yates
|
25bb4304e8
|
Merge pull request #187 from nf-core/revert-pep
Revert PEP validation back to python samplesheet check
|
2022-12-20 15:03:18 +01:00 |
|
James Fellows Yates
|
656956b0f9
|
Black formatting
|
2022-12-20 14:08:42 +01:00 |
|
James Fellows Yates
|
577da7e835
|
Remove .first() as the module only executes once anyway and we get a ugly warning
|
2022-12-20 13:59:14 +01:00 |
|
James A. Fellows Yates
|
41063bc670
|
Apply suggestions from code review
Co-authored-by: Moritz E. Beber <midnighter@posteo.net>
|
2022-12-20 13:56:01 +01:00 |
|
James Fellows Yates
|
11db981a88
|
minor fixes
|
2022-12-20 13:55:15 +01:00 |
|
James A. Fellows Yates
|
7709245874
|
Update subworkflows/local/input_check.nf
Co-authored-by: Moritz E. Beber <midnighter@posteo.net>
|
2022-12-20 13:54:05 +01:00 |
|
Sofia Stamouli
|
b5c72894fd
|
Merge pull request #194 from nf-core/multiqc_config
Configuration of multiqc report
|
2022-12-16 13:42:55 +01:00 |
|
Sofia Stamouli
|
07a1cfae62
|
Update assets/multiqc_config.yml
Co-authored-by: James A. Fellows Yates <jfy133@gmail.com>
|
2022-12-16 11:46:42 +01:00 |
|
Sofia Stamouli
|
5a592f086e
|
Update assets/multiqc_config.yml
Co-authored-by: James A. Fellows Yates <jfy133@gmail.com>
|
2022-12-16 11:46:35 +01:00 |
|
Sofia Stamouli
|
a2c81e33fd
|
Prettier
|
2022-12-16 08:38:58 +01:00 |
|
Sofia Stamouli
|
d6db04503e
|
Configuration of multiqc report
|
2022-12-15 17:04:45 +01:00 |
|
James A. Fellows Yates
|
aa117e8af9
|
Merge pull request #192 from nf-core/publishing-fix
Fix publishing of log files of rpreprocessing steps
|
2022-12-15 14:39:55 +01:00 |
|
James Fellows Yates
|
0bdc119f9c
|
Include falco patch
|
2022-12-15 13:27:41 +01:00 |
|
James Fellows Yates
|
9e6a91aff9
|
Distinguish Kraken2 from Bracken
|
2022-12-15 13:25:01 +01:00 |
|
James Fellows Yates
|
3b86a22556
|
Fix falco publication names
|
2022-12-15 12:57:49 +01:00 |
|
James Fellows Yates
|
88589fbc53
|
Fix publishing of log files of rpreprocessing steps
|
2022-12-15 10:35:06 +01:00 |
|
Sofia Stamouli
|
c9e4eba62d
|
Prettier
|
2022-12-13 11:26:06 +01:00 |
|
James A. Fellows Yates
|
578081df2e
|
Merge pull request #189 from nf-core/database-check
Adds (native groovy!) database check
|
2022-12-13 08:43:00 +01:00 |
|
James A. Fellows Yates
|
971f6a6ea8
|
Merge pull request #190 from nf-core/motus-update-version
Update mOTUs to 3.0.3
|
2022-12-12 18:24:05 +01:00 |
|
sofstam
|
4756dc7f0d
|
Update output.md
|
2022-12-12 17:14:57 +01:00 |
|
sofstam
|
b1eb477f33
|
Update output.md
|
2022-12-12 17:06:05 +01:00 |
|
James Fellows Yates
|
e31e7d3172
|
Update mOTUs to 3.0.3
|
2022-12-12 15:42:01 +01:00 |
|
James A. Fellows Yates
|
be85cb408c
|
Merge pull request #188 from nf-core/bracken-mergetables
Add Bracken mergetables
|
2022-12-12 11:26:19 +01:00 |
|
James Fellows Yates
|
7c66968fef
|
More comments
|
2022-12-12 11:04:21 +01:00 |
|
James Fellows Yates
|
460f3ca157
|
Add database sheet validation
|
2022-12-12 11:03:40 +01:00 |
|
James Fellows Yates
|
3df0a383da
|
Update combine bracken outputs to include meta for publishing purposes
|
2022-12-12 10:10:24 +01:00 |
|
James Fellows Yates
|
07bd989bc6
|
Start work on groovy native datbase checks
|
2022-12-12 10:02:22 +01:00 |
|
sofstam
|
c9a6320dac
|
Merge branch 'update_output' of https://github.com/genomic-medicine-sweden/taxprofiler into update_output
Conflicts:
docs/output.md
|
2022-12-12 09:13:02 +01:00 |
|
James Fellows Yates
|
4b68e95770
|
Revert PEP validation back to python samplesheet check
|
2022-12-12 08:49:13 +01:00 |
|
James Fellows Yates
|
8939ce3e20
|
Start adding bracken/combinebrackenreports (need smodule update)
|
2022-12-11 16:52:34 +01:00 |
|
sofstam
|
b35d26744d
|
Add classifiers
|
2022-12-09 17:11:48 +01:00 |
|
Sofia Stamouli
|
6d0b5d0a58
|
Prettier
|
2022-12-09 15:38:59 +01:00 |
|
sofstam
|
c5f4c9486a
|
Start the documentation of output.md
|
2022-12-09 15:30:11 +01:00 |
|
James A. Fellows Yates
|
13c4f44ca6
|
Merge pull request #185 from nf-core/nf-core-template-merge-2.7.1
Important! Template update for nf-core/tools v2.7.1
|
2022-12-09 12:58:28 +01:00 |
|
James Fellows Yates
|
dca0b86c78
|
Fix versions
|
2022-12-09 10:28:48 +01:00 |
|