X-Git-Url: https://git.arvados.org/arvados.git/blobdiff_plain/07a2b2c0e743f36be03e746a7e265986db555d3e..7407f41105f8000bb3908d41a31daaf3a30d9440:/sdk/cwl/tests/arvados-tests.yml

diff --git a/sdk/cwl/tests/arvados-tests.yml b/sdk/cwl/tests/arvados-tests.yml
index f6271b85d2..c4c0968756 100644
--- a/sdk/cwl/tests/arvados-tests.yml
+++ b/sdk/cwl/tests/arvados-tests.yml
@@ -102,8 +102,8 @@
             "size": 32
         },
         {
-            "checksum": "sha1$83483b9c65d99967aecc794c14f9f4743314d186",
-            "location": "sample2_S01_R3_001.fastq.txt",
+            "checksum": "sha1$5f3b4df1b0f7fdced751fc6079778600ad9fdb45",
+            "location": "sample2_S01_R1_001.fastq.txt",
             "class": "File",
             "size": 32
         }
@@ -118,8 +118,214 @@
   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: null
+  output:
+    out: null
+  tool: wf/runin-reqs-wf5.cwl
+  doc: "RunInSingleContainer has minimum 128 MiB RAM"
+
+- 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, v1.0
+  should_fail: true
+
+- job: null
+  output:
+    out: null
+  tool: wf-defaults/wf8.cwl
+  doc: default in embedded subworkflow missing 'id' field, v1.1
+  should_fail: false
+
+- 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$5bf6e5357bd42a6b1d2a3a040e16a91490064d26",
+        "location": "size.txt",
+        "class": "File",
+        "size": 3
+    }
+  tool: 13931-size.cwl
+  doc: Test that size is set for files in Keep
+
+- job: 15241-writable-dir-job.json
+  output: {
+    "results": {
+        "basename": "keep:6dd5fa20622d5a7a23c9147d0927da2a+180",
+        "class": "Directory",
+        "listing": [
+            {
+                "basename": "d7514270f356df848477718d58308cc4+94",
+                "class": "Directory",
+                "listing": [
+                    {
+                        "basename": "a",
+                        "checksum": "sha1$da39a3ee5e6b4b0d3255bfef95601890afd80709",
+                        "class": "File",
+                        "location": "a",
+                        "size": 0
+                    },
+                    {
+                        "basename": "blurg.txt",
+                        "checksum": "sha1$da39a3ee5e6b4b0d3255bfef95601890afd80709",
+                        "class": "File",
+                        "location": "blurg.txt",
+                        "size": 0
+                    },
+                    {
+                        "basename": "c",
+                        "class": "Directory",
+                        "listing": [
+                            {
+                                "basename": "d",
+                                "checksum": "sha1$da39a3ee5e6b4b0d3255bfef95601890afd80709",
+                                "class": "File",
+                                "location": "d",
+                                "size": 0
+                            }
+                        ],
+                        "location": "c"
+                    },
+                    {
+                        "basename": "b",
+                        "checksum": "sha1$da39a3ee5e6b4b0d3255bfef95601890afd80709",
+                        "class": "File",
+                        "location": "b",
+                        "size": 0
+                    }
+                ],
+                "location": "d7514270f356df848477718d58308cc4+94"
+            }
+        ],
+        "location": "keep:6dd5fa20622d5a7a23c9147d0927da2a+180"
+    }
+  }
+  tool: 15241-writable-dir.cwl
+  doc: Test for writable collections
+
+- job: badkeep.yml
+  output: {}
+  should_fail: true
+  tool: 15295-bad-keep-ref.cwl
+  doc: Test checking for invalid keepref
+
+- job: listing-job.yml
+  output: {
+    "out": {
+        "class": "File",
+        "location": "output.txt",
+        "size": 5,
+        "checksum": "sha1$724ba28f4a9a1b472057ff99511ed393a45552e1"
+    }
+  }
+  tool: 16169-no-listing-hint.cwl
+  doc: "Test cwltool:LoadListingRequirement propagation"