📝 update README and snapshots

papaemmelab · Aug 7, 2024 · 4d5f1ef · 4d5f1ef
1 parent f4cafa5
commit 4d5f1ef
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Showing 5 changed files with 13 additions and 5 deletions.
diff --git a/README.md b/README.md
@@ -44,6 +44,11 @@ More information on their [docs](https://github.com/hartwigmedical/hmftools/blob
 sh tests/run_test.sh
 ```
 
+To check tests and update snapshots run:
+```bash
+nf-test test --update-snapshot
+```
+
 ### Docker
 
 [Purple Docker image](https://hub.docker.com/r/papaemmelab/purple) was built for several platforms using [docker buildx](https://docs.docker.com/buildx/working-with-buildx/).

diff --git a/tests/data/TEST.cobalt.ratio.pcf b/tests/data/TEST.cobalt.ratio.pcf
@@ -0,0 +1,3 @@
+sampleID	chrom	arm	start.pos	end.pos	n.probes	mean
+S1	2	p	14001	397001	340	-7.24
+S1	17	p	1	397001	341	-8.813389396729216
diff --git a/tests/data/TEST.cobalt.ratio.tsv.gz b/tests/data/TEST.cobalt.ratio.tsv.gz
diff --git a/tests/main.bincobalt.nf.test b/tests/main.bincobalt.nf.test
@@ -11,8 +11,8 @@ nextflow_process {
                 tumor = "TEST"
                 binProbes = 100
                 binLogR = 0.5
-                cobalt_ratio_pcf = "${projectDir}/tests/outdir/cobalt/TEST.cobalt.ratio.pcf"
-                cobalt_ratio_tsv = "${projectDir}/tests/outdir/cobalt/TEST.cobalt.ratio.tsv.gz"
+                cobalt_ratio_pcf = "${projectDir}/tests/data/TEST.cobalt.ratio.pcf"
+                cobalt_ratio_tsv = "${projectDir}/tests/data/TEST.cobalt.ratio.tsv.gz"
             }
             process {
                 """

diff --git a/tests/main.runcobalt.nf.test.snap b/tests/main.runcobalt.nf.test.snap
@@ -6,10 +6,10 @@
                     "TEST.cobalt.ratio.tsv.gz:md5,87cf8451b04e4373fc4dd7ccda3e6afe"
                 ],
                 "1": [
-                    "TEST.cobalt.ratio.pcf:md5,cd95f6b56cecfd80461bf1bd13c7a9fd"
+                    "TEST.cobalt.ratio.pcf:md5,7fa4142d0d102e1f3b633d61d154d9c0"
                 ],
                 "cobalt_ratio_pcf": [
-                    "TEST.cobalt.ratio.pcf:md5,cd95f6b56cecfd80461bf1bd13c7a9fd"
+                    "TEST.cobalt.ratio.pcf:md5,7fa4142d0d102e1f3b633d61d154d9c0"
                 ],
                 "cobalt_ratio_tsv": [
                     "TEST.cobalt.ratio.tsv.gz:md5,87cf8451b04e4373fc4dd7ccda3e6afe"
@@ -20,6 +20,6 @@
             "nf-test": "0.9.0",
             "nextflow": "24.04.4"
         },
-        "timestamp": "2024-08-07T14:27:19.908802"
+        "timestamp": "2024-08-07T14:43:04.879169"
     }
 }