X-Git-Url: https://git.arvados.org/arvados.git/blobdiff_plain/224f384d411bb1b4cccc7165c55bb64fd5c695ad..fdf14c1b9b4866c371fce9791c09b939194f3b6c:/sdk/cwl/tests/arvados-tests.yml

diff --git a/sdk/cwl/tests/arvados-tests.yml b/sdk/cwl/tests/arvados-tests.yml
index 1187962a8e..e51c7a2531 100644
--- a/sdk/cwl/tests/arvados-tests.yml
+++ b/sdk/cwl/tests/arvados-tests.yml
@@ -1,3 +1,7 @@
+# Copyright (C) The Arvados Authors. All rights reserved.
+#
+# SPDX-License-Identifier: Apache-2.0
+
 - job: dir-job.yml
   output:
     "outlist": {
@@ -8,3 +12,234 @@
     }
   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$83483b9c65d99967aecc794c14f9f4743314d186",
+            "location": "sample2_S01_R3_001.fastq.txt",
+            "class": "File",
+            "size": 32
+        }
+    ]
+  }
+  tool: 12213-keepref-wf.cwl
+  doc: "Test manipulating keep references with expression tools"
+
+- job: null
+  output:
+    out: null
+  tool: 12418-glob-empty-collection.cwl
+  doc: "Test glob output on empty collection"
+
+- job: null
+  output:
+    out: null
+  tool: 13976-keepref-wf.cwl
+  doc: "Test issue 13976"
+
+- job: null
+  output:
+    out: out
+  tool: wf/runin-wf.cwl
+  doc: "RunInSingleContainer cwl.input.json needs to be consistent with pathmapper manipulations"
+
+- job: secondary/wf-job.yml
+  output: {}
+  tool: secondary/wf.cwl
+  doc: "RunInSingleContainer applies secondaryFile discovery & manipulation before generating cwl.input.yml"
+
+- job: null
+  output:
+    out: out
+  tool: wf/runin-with-ttl-wf.cwl
+  doc: "RunInSingleContainer respects outputTTL"
+
+- job: secret_test_job.yml
+  output: {
+    "out": {
+        "class": "File",
+        "location": "hashed_example.txt",
+        "size": 47,
+        "checksum": "sha1$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