Add the star-index example for the debugging blog post.

[arvados-tutorial.git] / blog-examples / debugging / fastqc / static / git-logo.png

diff --git a/blog-examples/debugging/fastqc_example/fastqc_blog_broken.cwl b/blog-examples/debugging/fastqc_example/fastqc_blog_broken.cwl
deleted file mode 100644 (file)
index 8d3d348..0000000
--- a/blog-examples/debugging/fastqc_example/fastqc_blog_broken.cwl
+++ /dev/null
@@ -1,53 +0,0 @@
-cwlVersion: v1.1
-class: CommandLineTool
-label: Quality check on FASTQ
-
-requirements:
-  DockerRequirement:
-    dockerPull: biocontainers/fastqc:v0.11.9_cv6
-  InitialWorkDirRequirement:
-    listing:
-      - $(inputs.fastq1)
-      - $(inputs.fastq2)
-
-hints:
-  SoftwareRequirement:
-    packages:
-      FastQC:
-        specs: [ "https://identifiers.org/rrid/RRID:SCR_014583" ]
-        version: [ "0.11.9" ]
-
-inputs:
-  fastq1:
-    type: Files
-    label: One of set of pair-end FASTQs (R1)
-
-  fastq2:
-    type: File
-    label: One of set of pair-end FASTQs (R2)
-
-outputs:
-  out-html:
-    type: File[]
-    label: FASTQ QC reports
-    outputBinding:
-      glob: "*html"
-  out-zip:
-    type: File[]
-    label: Zip files of FASTQ QC report and associated data
-    outputBinding:
-      glob: "*fastqc.zip"
-
-baseCommand: fastqc
-
-arguments:
-  - "--noextract"
-  - $(inputs.fastq1.basename)
-  - $(inputs.fastq2.basename)
-
-s:codeRepository: https://github.com/arvados/arvados-tutorial/blog-examples/debugging
-s:license: https://www.gnu.org/licenses/agpl-3.0.en.html
-
-$namespaces:
- s: https://schema.org/
- edam: http://edamontology.org/