cwl source code

1 /**
2  * Authors: Tomoya Tanjo
3  * Copyright: © 2021 Tomoya Tanjo
4  * License: Apache-2.0
5  */
6 module cwl;
7 
8 import cwl.schema;
9 
10 import salad.parser : import_ = importFromURI;
11 import salad.meta : DocRootType = DocumentRootType;
12 
13 alias importFromURI = import_!(cwl.schema);
14 alias DocumentRootType = DocRootType!(cwl.schema);
15 
16 unittest
17 {
18     import salad.type : tryMatch;
19     import salad.util : dig;
20     import std.exception : assertNotThrown;
21     import std.path : absolutePath;
22 
23     auto uri = "file://"~"examples/bwa-mem-tool.cwl".absolutePath;
24 
25     auto cwl = importFromURI(uri).tryMatch!((DocumentRootType r) => r)
26                                  .assertNotThrown;
27     assert(cwl.tryMatch!(p => p.dig!("class", string))
28               .assertNotThrown == "CommandLineTool");
29 
30     auto cmd = cwl.tryMatch!((CommandLineTool c) => c)
31                   .assertNotThrown;
32     assert(cmd.dig!"cwlVersion"("v1.2") == "v1.0");
33     assert(cmd.dig!(["inputs", "reference", "type"], CWLType) == "File");
34     assert(cmd.dig!("hints", Any[])[0]
35               .as!ResourceRequirement
36               .dig!("coresMin", long) == 2);
37 }
38 
39 unittest
40 {
41     import salad.type : tryMatch;
42     import salad.util : dig;
43     import std.exception : assertNotThrown;
44     import std.path : absolutePath;
45 
46     auto uri = "file://"~"examples/count-lines1-wf.cwl".absolutePath;
47     auto cwl = importFromURI(uri).tryMatch!((DocumentRootType r) => r)
48                                  .assertNotThrown;
49     assert(cwl.tryMatch!(p => p.dig!("class", string))
50               .assertNotThrown == "Workflow");
51 
52     auto wf = cwl.tryMatch!((Workflow w) => w)
53                  .assertNotThrown;
54     assert(wf.dig!"class"("Invalid") == "Workflow");
55     assert(wf.dig!"cwlVersion"("v1.2") == "v1.0");
56     assert(wf.dig!(["inputs", "file1", "type"], CWLType) == "File");
57     assert(wf.dig!(["outputs", "count_output", "outputSource"], string) == "step2/output");
58 }
59 
60 unittest
61 {
62     import salad.type : tryMatch;
63     import salad.util : dig;
64     import std.exception : assertNotThrown;
65     import std.path : absolutePath;
66 
67     auto uri = "file://"~"examples/revsort-packed.cwl".absolutePath;
68     auto cwls = importFromURI(uri).tryMatch!((DocumentRootType[] rs) => rs)
69                                   .assertNotThrown;
70     assert(cwls.length == 3);
71 
72     auto cwl = importFromURI(uri, "#main").tryMatch!((DocumentRootType r) => r)
73                                           .assertNotThrown;
74     assert(cwl.tryMatch!(p => p.dig!("class", string)) == "Workflow");
75 
76     auto wf = cwl.tryMatch!((Workflow w) => w)
77                  .assertNotThrown;
78     assert(wf.dig!("doc", string) == "Reverse the lines in a document, then sort those lines.");
79 }