Closed zb32 closed 1 year ago
nf-core lint
overall result: Passed :white_check_mark: :warning:Posted for pipeline commit 128e783
+| ✅ 127 tests passed |+
#| ❔ 15 tests were ignored |#
!| ❗ 8 tests had warnings |!
- Is the structure of
blobdir/
right ? It feels like the real blobdir is actuallyblobdir/GCA_922984935.2.subset/
.- Is
taxdump/taxdump.json
supposed to be published ? That seems to be the result of adding thepath('**/*.json')
output channel$ ls -l blobdir/ total 16 drwxr-sr-x 2 mm49 team328 12288 Mar 28 12:20 GCA_922984935.2.subset drwxr-sr-x 2 mm49 team328 4096 Mar 28 12:20 taxdump $ ls -l blobdir/taxdump/ total 565528 -rw-r--r-- 1 mm49 team328 579093255 Mar 28 12:20 taxdump.json $ ls -l blobdir/GCA_922984935.2.subset/ | head total 372 -rw-r--r-- 1 mm49 team328 36 Mar 28 12:20 archaea_odb10_count.json -rw-r--r-- 1 mm49 team328 224 Mar 28 12:20 archaea_odb10_count_windows_1000000.json -rw-r--r-- 1 mm49 team328 1448 Mar 28 12:20 archaea_odb10_count_windows_100000.json -rw-r--r-- 1 mm49 team328 36 Mar 28 12:20 bacteria_odb10_count.json -rw-r--r-- 1 mm49 team328 225 Mar 28 12:20 bacteria_odb10_count_windows_1000000.json -rw-r--r-- 1 mm49 team328 1449 Mar 28 12:20 bacteria_odb10_count_windows_100000.json -rw-r--r-- 1 mm49 team328 36 Mar 28 12:20 buscogenes_class_cindex.json -rw-r--r-- 1 mm49 team328 51 Mar 28 12:20 buscogenes_class.json -rw-r--r-- 1 mm49 team328 119 Mar 28 12:20 buscogenes_class_positions.json
Hi you're right sorry I missed this I've changed it now :)
Creates blobdir for viewer.
PR checklist
nf-core lint
).nextflow run . -profile test,singularity,sanger --outdir <OUTDIR>
) locally.nextflow run . -profile test_full,singularity,sanger --outdir <OUTDIR>
) locally.docs/output.md
is updated.README.md
is updated (including new tool citations and authors/contributors).