fix piscem version

nf-core · Sep 10, 2024 · ccd336c · ccd336c
1 parent 39bdccd
commit ccd336c
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Showing 6 changed files with 20 additions and 27 deletions.
diff --git a/modules/nf-core/simpleaf/index/environment.yml b/modules/nf-core/simpleaf/index/environment.yml
@@ -4,6 +4,6 @@ channels:
 
 dependencies:
   - bioconda::alevin-fry=0.10.0
-  - bioconda::piscem=0.10.3
+  - bioconda::piscem=0.10.2
   - bioconda::salmon=1.10.3
   - bioconda::simpleaf=0.17.2
diff --git a/modules/nf-core/simpleaf/index/main.nf b/modules/nf-core/simpleaf/index/main.nf
@@ -65,7 +65,6 @@ process SIMPLEAF_INDEX {
     touch ${prefix}/index/piscem_idx.ectab
     touch ${prefix}/index/piscem_idx.sshash
     touch ${prefix}/ref/t2g_3col.tsv
-    touch ${prefix}/ref/t2g.tsv
     touch ${prefix}/ref/roers_ref.fa
 
     cat <<-END_VERSIONS > versions.yml

diff --git a/modules/nf-core/simpleaf/index/tests/main.nf.test b/modules/nf-core/simpleaf/index/tests/main.nf.test
@@ -31,7 +31,7 @@ nextflow_process {
                 { assert process.success },
                 { assert snapshot(
                     path("${process.out.index[0][1]}/piscem_idx.ctab"),
-                    // path("${process.out.index[0][1]}/piscem_idx.ectab"),
+                    path("${process.out.index[0][1]}/piscem_idx.ectab"),
                     path("${process.out.index[0][1]}/piscem_idx.sshash"),
                     process.out.versions)
                     .match() }
@@ -60,7 +60,7 @@ nextflow_process {
                 { assert process.success },
                 { assert snapshot(
                     path("${process.out.index[0][1]}/piscem_idx.ctab"),
-                    // path("${process.out.index[0][1]}/piscem_idx.ectab"),
+                    path("${process.out.index[0][1]}/piscem_idx.ectab"),
                     path("${process.out.index[0][1]}/piscem_idx.sshash"),
                     process.out.versions)
                     .match() }

diff --git a/modules/nf-core/simpleaf/index/tests/main.nf.test.snap b/modules/nf-core/simpleaf/index/tests/main.nf.test.snap
@@ -2,16 +2,17 @@
     "Homo sapiens - transcriptome index - direct - transcriptome fasta": {
         "content": [
             "piscem_idx.ctab:md5,f429908da5868ac8e134044c697d7ed1",
+            "piscem_idx.ectab:md5,e8bf4860e5863c55b26b0f24d195a080",
             "piscem_idx.sshash:md5,445a7cdda4c45a826ba144fd13efd98f",
             [
-                "versions.yml:md5,fba49ddd8bb34e2c5944e5485b08653e"
+                "versions.yml:md5,30703d341fdd77cb1d20a4b1b1b51c96"
             ]
         ],
         "meta": {
             "nf-test": "0.9.0",
             "nextflow": "24.04.4"
         },
-        "timestamp": "2024-09-09T16:18:07.404958787"
+        "timestamp": "2024-09-09T22:12:37.926573509"
     },
     "Homo sapiens - transcriptome index - direct - transcriptome fasta - stub": {
         "content": [
@@ -29,7 +30,6 @@
                             ],
                             [
                                 "roers_ref.fa:md5,d41d8cd98f00b204e9800998ecf8427e",
-                                "t2g.tsv:md5,d41d8cd98f00b204e9800998ecf8427e",
                                 "t2g_3col.tsv:md5,d41d8cd98f00b204e9800998ecf8427e"
                             ]
                         ]
@@ -52,14 +52,11 @@
                         [
 
                         ],
-                        [
-                            "t2g.tsv:md5,d41d8cd98f00b204e9800998ecf8427e",
-                            "t2g_3col.tsv:md5,d41d8cd98f00b204e9800998ecf8427e"
-                        ]
+                        "t2g_3col.tsv:md5,d41d8cd98f00b204e9800998ecf8427e"
                     ]
                 ],
                 "3": [
-                    "versions.yml:md5,fba49ddd8bb34e2c5944e5485b08653e"
+                    "versions.yml:md5,30703d341fdd77cb1d20a4b1b1b51c96"
                 ],
                 "index": [
                     [
@@ -86,7 +83,6 @@
                             ],
                             [
                                 "roers_ref.fa:md5,d41d8cd98f00b204e9800998ecf8427e",
-                                "t2g.tsv:md5,d41d8cd98f00b204e9800998ecf8427e",
                                 "t2g_3col.tsv:md5,d41d8cd98f00b204e9800998ecf8427e"
                             ]
                         ]
@@ -97,35 +93,33 @@
                         [
 
                         ],
-                        [
-                            "t2g.tsv:md5,d41d8cd98f00b204e9800998ecf8427e",
-                            "t2g_3col.tsv:md5,d41d8cd98f00b204e9800998ecf8427e"
-                        ]
+                        "t2g_3col.tsv:md5,d41d8cd98f00b204e9800998ecf8427e"
                     ]
                 ],
                 "versions": [
-                    "versions.yml:md5,fba49ddd8bb34e2c5944e5485b08653e"
+                    "versions.yml:md5,30703d341fdd77cb1d20a4b1b1b51c96"
                 ]
             }
         ],
         "meta": {
             "nf-test": "0.9.0",
             "nextflow": "24.04.4"
         },
-        "timestamp": "2024-09-09T01:39:35.572079261"
+        "timestamp": "2024-09-09T21:01:39.858270591"
     },
     "Homo sapiens - genome index - expanded - fasta + gtf": {
         "content": [
             "piscem_idx.ctab:md5,b1f06b8f955abb081af621314eecec1b",
+            "piscem_idx.ectab:md5,a5ea0ccd884e5eaef81cc1154926e08f",
             "piscem_idx.sshash:md5,f849ef7856214dcfd7aa0ba18398efb7",
             [
-                "versions.yml:md5,fba49ddd8bb34e2c5944e5485b08653e"
+                "versions.yml:md5,30703d341fdd77cb1d20a4b1b1b51c96"
             ]
         ],
         "meta": {
             "nf-test": "0.9.0",
             "nextflow": "24.04.4"
         },
-        "timestamp": "2024-09-09T16:11:01.178452546"
+        "timestamp": "2024-09-09T22:25:14.513942176"
     }
 }
diff --git a/modules/nf-core/simpleaf/quant/environment.yml b/modules/nf-core/simpleaf/quant/environment.yml
@@ -4,6 +4,6 @@ channels:
 
 dependencies:
   - bioconda::alevin-fry=0.10.0
-  - bioconda::piscem=0.10.3
+  - bioconda::piscem=0.10.2
   - bioconda::salmon=1.10.3
   - bioconda::simpleaf=0.17.2
diff --git a/modules/nf-core/simpleaf/quant/tests/main.nf.test.snap b/modules/nf-core/simpleaf/quant/tests/main.nf.test.snap
@@ -25,7 +25,7 @@
                     ]
                 ],
                 "1": [
-                    "versions.yml:md5,6e9734db1abb84a23b39baa41283f20b"
+                    "versions.yml:md5,19db79e2abd98816db56822594c2e84d"
                 ],
                 "results": [
                     [
@@ -50,20 +50,20 @@
                     ]
                 ],
                 "versions": [
-                    "versions.yml:md5,6e9734db1abb84a23b39baa41283f20b"
+                    "versions.yml:md5,19db79e2abd98816db56822594c2e84d"
                 ]
             }
         ],
         "meta": {
             "nf-test": "0.9.0",
             "nextflow": "24.04.4"
         },
-        "timestamp": "2024-09-09T01:53:36.128111122"
+        "timestamp": "2024-09-09T21:02:19.977137802"
     },
     "test_simpleaf_quant": {
         "content": [
             [
-                "versions.yml:md5,6e9734db1abb84a23b39baa41283f20b"
+                "versions.yml:md5,19db79e2abd98816db56822594c2e84d"
             ],
             "map.rad:md5,12ac1fd13f7c50187b5fefe59d38a362",
             "unmapped_bc_count.bin:md5,5a5431defc51b674f204b887b2bd5892",
@@ -75,6 +75,6 @@
             "nf-test": "0.9.0",
             "nextflow": "24.04.4"
         },
-        "timestamp": "2024-09-09T01:47:07.614767499"
+        "timestamp": "2024-09-09T21:02:12.357247749"
     }
 }