+# Copyright (C) The Arvados Authors. All rights reserved.
+#
+# SPDX-License-Identifier: Apache-2.0
+
- job: dir-job.yml
output:
"outlist": {
}
tool: keep-dir-test-input.cwl
doc: Test directory in keep
+
+- job: dir-job2.yml
+ output:
+ "outlist": {
+ "size": 20,
+ "location": "output.txt",
+ "class": "File",
+ "checksum": "sha1$13cda8661796ae241da3a18668fb552161a72592"
+ }
+ tool: keep-dir-test-input.cwl
+ doc: Test directory in keep
+
+- job: null
+ output:
+ "outlist": {
+ "size": 20,
+ "location": "output.txt",
+ "class": "File",
+ "checksum": "sha1$13cda8661796ae241da3a18668fb552161a72592"
+ }
+ tool: keep-dir-test-input2.cwl
+ doc: Test default directory in keep
+
+- job: null
+ output:
+ "outlist": {
+ "size": 20,
+ "location": "output.txt",
+ "class": "File",
+ "checksum": "sha1$13cda8661796ae241da3a18668fb552161a72592"
+ }
+ tool: keep-dir-test-input3.cwl
+ doc: Test default directory in keep
+
+- job: octo.yml
+ output: {}
+ tool: cat.cwl
+ doc: Test hashes in filenames
+
+- job: listing-job.yml
+ output: {
+ "out": {
+ "class": "File",
+ "location": "output.txt",
+ "size": 5,
+ "checksum": "sha1$724ba28f4a9a1b472057ff99511ed393a45552e1"
+ }
+ }
+ tool: wf/listing_shallow.cwl
+ doc: test shallow directory listing
+
+- job: listing-job.yml
+ output: {
+ "out": {
+ "class": "File",
+ "location": "output.txt",
+ "size": 5,
+ "checksum": "sha1$724ba28f4a9a1b472057ff99511ed393a45552e1"
+ }
+ }
+ tool: wf/listing_none.cwl
+ doc: test no directory listing
+
+- job: listing-job.yml
+ output: {
+ "out": {
+ "class": "File",
+ "location": "output.txt",
+ "size": 5,
+ "checksum": "sha1$724ba28f4a9a1b472057ff99511ed393a45552e1"
+ }
+ }
+ tool: wf/listing_deep.cwl
+ doc: test deep directory listing
+
+- job: null
+ output: {}
+ tool: noreuse.cwl
+ doc: "Test arv:ReuseRequirement"
+
+- job: 12213-keepref-job.yml
+ output: {
+ "out": [
+ {
+ "checksum": "sha1$1c78028c0d69163391eef89316b44a57bde3fead",
+ "location": "sample1_S01_R1_001.fastq.txt",
+ "class": "File",
+ "size": 32
+ },
+ {
+ "checksum": "sha1$5f3b4df1b0f7fdced751fc6079778600ad9fdb45",
+ "location": "sample2_S01_R1_001.fastq.txt",
+ "class": "File",
+ "size": 32
+ }
+ ]
+ }
+ tool: 12213-keepref-wf.cwl
+ doc: "Test manipulating keep references with expression tools"
+
+- job: null
+ output:
+ out: null
+ tool: 12418-glob-empty-collection.cwl
+ doc: "Test glob output on empty collection"
+
+- job: null
+ output:
+ out: null
+ tool: 13976-keepref-wf.cwl
+ doc: "Test issue 13976"
+
+- job: null
+ output:
+ out: out
+ tool: wf/runin-wf.cwl
+ doc: "RunInSingleContainer cwl.input.json needs to be consistent with pathmapper manipulations"
+
+- job: secondary/wf-job.yml
+ output: {}
+ tool: secondary/wf.cwl
+ doc: "RunInSingleContainer applies secondaryFile discovery & manipulation before generating cwl.input.yml"
+
+- job: null
+ output:
+ out: out
+ tool: wf/runin-with-ttl-wf.cwl
+ doc: "RunInSingleContainer respects outputTTL"
+
+- job: secret_test_job.yml
+ output: {
+ "out": {
+ "class": "File",
+ "location": "hashed_example.txt",
+ "size": 47,
+ "checksum": "sha1$f45341c7f03b4dd10646c402908d1aea0d580f5d"
+ }
+ }
+ tool: wf/secret_wf.cwl
+ doc: "Test secret input parameters"
+ tags: [ secrets ]
+
+- job: null
+ output:
+ out: null
+ tool: wf/runin-reqs-wf.cwl
+ doc: "RunInSingleContainer handles dynamic resource requests on step"
+
+- job: null
+ output:
+ out: null
+ tool: wf/runin-reqs-wf2.cwl
+ doc: "RunInSingleContainer handles dynamic resource requests on embedded subworkflow"
+
+- job: null
+ output:
+ out: null
+ tool: wf/runin-reqs-wf3.cwl
+ should_fail: true
+ doc: "RunInSingleContainer disallows dynamic resource request on subworkflow steps"
+
+- job: null
+ output:
+ out: null
+ tool: wf/runin-reqs-wf4.cwl
+ doc: "RunInSingleContainer discovers static resource request in subworkflow steps"
+
+- job: secondaryFiles/inp3.yml
+ output: {}
+ tool: secondaryFiles/example1.cwl
+ doc: Discover secondaryFiles at runtime if they are in keep
+
+- job: null
+ output: {}
+ tool: secondaryFiles/example3.cwl
+ doc: Discover secondaryFiles on default values
+
+- job: null
+ output:
+ out: null
+ tool: wf-defaults/wf1.cwl
+ doc: "Can have separate default parameters including directory and file inside same directory"
+
+- job: null
+ output:
+ out: null
+ tool: wf-defaults/wf2.cwl
+ doc: "Can have a parameter default value that is a directory literal with a file literal"
+
+- job: null
+ output:
+ out: null
+ tool: wf-defaults/wf3.cwl
+ doc: "Do not accept a directory literal without a basename"
+ should_fail: true
+
+- job: null
+ output:
+ out: null
+ tool: wf-defaults/wf4.cwl
+ doc: default in embedded subworkflow missing 'id' field
+ should_fail: true
+
+- job: null
+ output:
+ out: null
+ tool: wf-defaults/wf5.cwl
+ doc: default in embedded subworkflow
+
+- job: null
+ output:
+ out: null
+ tool: wf-defaults/wf6.cwl
+ doc: default in RunInSingleContainer step
+
+- job: null
+ output:
+ out: null
+ tool: wf-defaults/wf7.cwl
+ doc: workflow level default in RunInSingleContainer
+
+- job: 13931-size-job.yml
+ output:
+ "out": {
+ "checksum": "sha1$5bf6e5357bd42a6b1d2a3a040e16a91490064d26",
+ "location": "size.txt",
+ "class": "File",
+ "size": 3
+ }
+ tool: 13931-size.cwl
+ doc: Test that size is set for files in Keep