Skip to content

tests: declare class:Collection / collection_type (rnaseq-sr) #1295

New issue

Have a question about this project? Sign up for a free GitHub account to open an issue and contact its maintainers and the community.

Sign up for GitHub

By clicking “Sign up for GitHub”, you agree to our terms of service and privacy statement. We’ll occasionally send you account related emails.

Already on GitHub? Sign in to your account

Merged
mvdbeek merged 1 commit into from
Jul 15, 2026
Merged

tests: declare class:Collection / collection_type (rnaseq-sr) #1295

Changes from all commits
Commits
Show all changes
1 commit
Select commit
File filter

Filter by extension

Filter by extension
Conversations
Failed to load comments.
Loading
Jump to
Jump to file
Failed to load files.
Loading
Diff view
Diff view
7 changes: 7 additions & 0 deletions workflows/transcriptomics/rnaseq-sr/rnaseq-sr-tests.yml
View file
Open in desktop
Original file line number Diff line number Diff line change
Expand Up @@ -31,37 +31,43 @@
has_text_matching:
expression: "SRR5085167\t0.11[0-9]*\t18.3[0-9]*\t69.6[0-9]*\t0.3[0-9]*\t0.3[0-9]*\t94.62\t0.12[0-9]*\t34.43\t0.2[0-9]*\t90.[0-9]*\t16.[0-9]*\t0.3[0-9]*\t43.[0-9]*\t91.[0-9]*\t61.[0-9]*\t70.[0-9]*\t75.0\t27.[0-9]*\t46.1\t75.0\t75\t27.[0-9]*\t0.39[0-9]*"
Counts Table:
class: Collection
element_tests:
SRR5085167:
asserts:
has_line:
line: "YAL038W\t1775"
Mapped Reads:
class: Collection
element_tests:
SRR5085167:
asserts:
has_size:
value: 31570787
delta: 3000000
Gene Abundance Estimates from StringTie:
class: Collection
element_tests:
SRR5085167:
asserts:
has_text_matching:
expression: "YAL038W\tCDC19\tchrI\t\\+\t71786\t73288\t57.[0-9]*\t3575.[0-9]*\t2900.[0-9]*"
Genes Expression from Cufflinks:
class: Collection
element_tests:
SRR5085167:
asserts:
has_text_matching:
expression: "YAL038W\t-\t-\tYAL038W\tCDC19\t-\tchrI:71785-73288\t-\t-\t3375.8[0-9]*\t3161.3[0-9]*\t3590.3[0-9]*\tOK"
Transcripts Expression from Cufflinks:
class: Collection
element_tests:
SRR5085167:
asserts:
has_text_matching:
expression: "YAL038W_mRNA\t-\t-\tYAL038W\tCDC19\t-\tchrI:71785-73288\t1503\t57.56[0-9]*\t3375.8[0-9]*\t3161.3[0-9]*\t3590.3[0-9]*\tOK"
Stranded Coverage:
class: Collection
element_tests:
SRR5085167_forward:
asserts:
Expand All @@ -74,6 +80,7 @@
value: 526952
delta: 50000
Unstranded Coverage:
class: Collection
element_tests:
SRR5085167:
asserts:
Expand Down
Loading