X-Git-Url: https://git.arvados.org/arvados.git/blobdiff_plain/95e5ccacf6c1193b313fa90a6d39baafa2ba67d8..ae92d144610446849eb568247a44f02ae985c281:/sdk/cwl/tests/arvados-tests.yml

diff --git a/sdk/cwl/tests/arvados-tests.yml b/sdk/cwl/tests/arvados-tests.yml
index e51c7a2531..9e691bdba5 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
         }
@@ -120,7 +120,12 @@
 
 - job: null
   output:
-    out: null
+    "out": {
+        "location": "hello.out",
+        "class": "File",
+        "checksum": "sha1$ec5d3976351abab45a483a49ce714a8430cb203a",
+        "size": 24
+    }
   tool: 13976-keepref-wf.cwl
   doc: "Test issue 13976"
 
@@ -179,6 +184,12 @@
   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
@@ -212,9 +223,16 @@
   output:
     out: null
   tool: wf-defaults/wf4.cwl
-  doc: default in embedded subworkflow missing 'id' field
+  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
@@ -243,3 +261,191 @@
     }
   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$724ba28f4a9a1b472057ff99511ed393a45552e1"
+    }
+  }
+  tool: 16169-no-listing-hint.cwl
+  doc: "Test cwltool:LoadListingRequirement propagation"
+
+- job: hello.yml
+  output:
+    "out": {
+        "location": "hello.out",
+        "class": "File",
+        "checksum": "sha1$ec5d3976351abab45a483a49ce714a8430cb203a",
+        "size": 24
+    }
+  tool: 16377-missing-default.cwl
+  doc: "Test issue 16377 - missing default fails even when it should be overridden by valid input"
+
+- job: hello.yml
+  output:
+    "out":
+      "checksum": "sha1$f1d2d2f924e986ac86fdf7b36c94bcdf32beec15"
+      "class": "File"
+      "location": "foo.txt"
+      "size": 4
+  tool: 17267-broken-schemas.cwl
+  doc: "Test issue 17267 - inaccessible $schemas URL is not a fatal error"
+
+- job: null
+  output: {}
+  tool: wf/trick_defaults2.cwl
+  doc: "Test issue 17462 - secondary file objects on file defaults are not resolved"
+
+- job: null
+  output: {
+    "stuff": {
+        "location": "bar.txt",
+        "basename": "bar.txt",
+        "class": "File",
+        "checksum": "sha1$da39a3ee5e6b4b0d3255bfef95601890afd80709",
+        "size": 0
+    }
+  }
+  tool: 17521-dot-slash-glob.cwl
+  doc: "Test issue 17521 - bug with leading './' capturing files in subdirectories"
+
+- job: null
+  output: {
+    "stuff": {
+        "basename": "foo",
+        "class": "Directory",
+        "listing": [
+            {
+                "basename": "bar.txt",
+                "checksum": "sha1$da39a3ee5e6b4b0d3255bfef95601890afd80709",
+                "class": "File",
+                "location": "foo/bar.txt",
+                "size": 0
+            }
+        ],
+        "location": "foo"
+    }
+  }
+  tool: 10380-trailing-slash-dir.cwl
+  doc: "Test issue 10380 - bug with trailing slash when capturing an output directory"
+
+- job: null
+  output: {
+    "stuff": {
+        "basename": "78f3957c41d044352303a3fa326dff1e+102",
+        "class": "Directory",
+        "listing": [
+            {
+                "basename": "baz.txt",
+                "checksum": "sha1$da39a3ee5e6b4b0d3255bfef95601890afd80709",
+                "class": "File",
+                "location": "78f3957c41d044352303a3fa326dff1e+102/baz.txt",
+                "size": 0
+            },
+            {
+                "basename": "foo",
+                "class": "Directory",
+                "listing": [
+                    {
+                        "basename": "bar.txt",
+                        "checksum": "sha1$da39a3ee5e6b4b0d3255bfef95601890afd80709",
+                        "class": "File",
+                        "location": "78f3957c41d044352303a3fa326dff1e+102/foo/bar.txt",
+                        "size": 0
+                    }
+                ],
+                "location": "78f3957c41d044352303a3fa326dff1e+102/foo"
+            }
+        ],
+        "location": "78f3957c41d044352303a3fa326dff1e+102"
+    }
+  }
+  tool: 17801-runtime-outdir.cwl
+  doc: "Test issue 17801 - bug using $(runtime.outdir) to capture the output directory"
+
+- job: null
+  output:
+    "val": "keep:f225e6259bdd63bc7240599648dde9f1+97/hg19.fa"
+  tool: 17858-pack-visit-crash.cwl
+  doc: "Test issue 17858 - keep ref default inputs on ExpressionTool"
+
+- job: 17879-ignore-sbg-fields-job.yml
+  output:
+    "outstr": "foo woble bar"
+  tool: 17879-ignore-sbg-fields.cwl
+  doc: "Test issue 17879 - ignores sbg fields"
+
+- job: chipseq/chip-seq-single.json
+  output: {}
+  tool: chipseq/cwl-packed.json
+  doc: "Test issue 18723 - correctly upload two directories with the same basename"
+
+- job: null
+  output: {}
+  tool: 18994-basename/wf_ren.cwl
+  doc: "Test issue 18994 - correctly stage file with modified basename"