Merge branch 'main' into seqera-containers-part-2

nf-core · Oct 2, 2024 · e12837b · e12837b
2 parents 3ce2140 + f6ee160
commit e12837b
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Showing 8 changed files with 5,781 additions and 5,561 deletions.
diff --git a/.cache.tar.xz b/.cache.tar.xz
diff --git a/package-lock.json b/package-lock.json
diff --git a/public/components.json b/public/components.json
@@ -5189,10 +5189,6 @@
           "name": "mag",
           "version": "3.0.3"
         },
-        {
-          "name": "magmap",
-          "version": "dev"
-        },
         {
           "name": "proteinfold",
           "version": "1.1.1"
@@ -7600,6 +7596,10 @@
           "name": "rnafusion",
           "version": "3.0.2"
         },
+        {
+          "name": "rnafusion",
+          "version": "3.0.2"
+        },
         {
           "name": "rnafusion",
           "version": "3.0.2"
@@ -24699,6 +24699,14 @@
           "name": "genomeassembler",
           "version": "dev"
         },
+        {
+          "name": "pathogensurveillance",
+          "version": "dev"
+        },
+        {
+          "name": "genomeassembler",
+          "version": "dev"
+        },
         {
           "name": "pathogensurveillance",
           "version": "dev"
@@ -31086,10 +31094,6 @@
         {
           "name": "mag",
           "version": "3.0.3"
-        },
-        {
-          "name": "magmap",
-          "version": "dev"
         }
       ]
     },
@@ -31226,10 +31230,6 @@
         {
           "name": "mag",
           "version": "3.0.3"
-        },
-        {
-          "name": "magmap",
-          "version": "dev"
         }
       ]
     },
@@ -39157,6 +39157,10 @@
           "name": "createtaxdb",
           "version": "dev"
         },
+        {
+          "name": "drugresponseeval",
+          "version": "dev"
+        },
         {
           "name": "genomeannotator",
           "version": "dev"
@@ -51921,6 +51925,10 @@
           "name": "detaxizer",
           "version": "1.0.0"
         },
+        {
+          "name": "drugresponseeval",
+          "version": "dev"
+        },
         {
           "name": "fastquorum",
           "version": "1.0.1"
@@ -80327,10 +80335,6 @@
         {
           "name": "mag",
           "version": "3.0.3"
-        },
-        {
-          "name": "magmap",
-          "version": "dev"
         }
       ]
     },
@@ -106225,6 +106229,10 @@
           "name": "genomeassembler",
           "version": "dev"
         },
+        {
+          "name": "genomeassembler",
+          "version": "dev"
+        },
         {
           "name": "genomeassembler",
           "version": "dev"
@@ -115345,6 +115353,10 @@
           "name": "detaxizer",
           "version": "1.0.0"
         },
+        {
+          "name": "drugresponseeval",
+          "version": "dev"
+        },
         {
           "name": "epitopeprediction",
           "version": "2.3.1"
@@ -178362,10 +178374,6 @@
           "name": "mag",
           "version": "3.0.3"
         },
-        {
-          "name": "magmap",
-          "version": "dev"
-        },
         {
           "name": "methylseq",
           "version": "2.6.0"

diff --git a/public/pipeline_names.json b/public/pipeline_names.json
@@ -1 +1 @@
-{"pipeline":["airrflow","ampliseq","atacseq","bacass","bactmap","bamtofastq","cageseq","callingcards","chipseq","circdna","circrna","clipseq","coproid","createpanelrefs","createtaxdb","crisprseq","cutandrun","datasync","demo","demultiplex","denovotranscript","detaxizer","diaproteomics","differentialabundance","dualrnaseq","eager","epitopeprediction","fastquorum","fetchngs","funcscan","genomeannotator","genomeassembler","genomeskim","gwas","hgtseq","hic","hicar","hlatyping","imcyto","isoseq","lncpipe","mag","magmap","marsseq","mcmicro","meerpipe","metaboigniter","metapep","metatdenovo","methylarray","methylseq","mhcquant","mnaseseq","molkart","multiplesequencealign","nanoseq","nanostring","nascent","omicsgenetraitassociation","oncoanalyser","pairgenomealign","pangenome","pathogensurveillance","pgdb","phageannotator","phaseimpute","phyloplace","pixelator","proteinfold","proteomicslfq","radseq","rangeland","raredisease","readsimulator","reportho","riboseq","rnadnavar","rnafusion","rnaseq","rnasplice","rnavar","sammyseq","sarek","scdownstream","scnanoseq","scrnaseq","seqinspector","slamseq","smrnaseq","spatialvi","spinningjenny","taxprofiler","tbanalyzer","tfactivity","troughgraph","variantbenchmarking","variantcatalogue","viralintegration","viralrecon"]}
+{"pipeline":["airrflow","ampliseq","atacseq","bacass","bactmap","bamtofastq","cageseq","callingcards","chipseq","circdna","circrna","clipseq","coproid","createpanelrefs","createtaxdb","crisprseq","cutandrun","datasync","demo","demultiplex","denovotranscript","detaxizer","diaproteomics","differentialabundance","drugresponseeval","dualrnaseq","eager","epitopeprediction","fastquorum","fetchngs","funcscan","genomeannotator","genomeassembler","genomeskim","gwas","hgtseq","hic","hicar","hlatyping","imcyto","isoseq","lncpipe","mag","magmap","marsseq","mcmicro","meerpipe","metaboigniter","metapep","metatdenovo","methylarray","methylseq","mhcquant","mnaseseq","molkart","multiplesequencealign","nanoseq","nanostring","nascent","omicsgenetraitassociation","oncoanalyser","pairgenomealign","pangenome","pathogensurveillance","pgdb","phageannotator","phaseimpute","phyloplace","pixelator","proteinfold","proteomicslfq","radseq","rangeland","raredisease","readsimulator","reportho","riboseq","rnadnavar","rnafusion","rnaseq","rnasplice","rnavar","sammyseq","sarek","scdownstream","scnanoseq","scrnaseq","seqinspector","slamseq","smrnaseq","spatialvi","spinningjenny","taxprofiler","tbanalyzer","tfactivity","troughgraph","variantbenchmarking","variantcatalogue","viralintegration","viralrecon"]}
Original file line number	Diff line number	Diff line change
		@@ -1 +1 @@
		{"pipeline":["airrflow","ampliseq","atacseq","bacass","bactmap","bamtofastq","cageseq","callingcards","chipseq","circdna","circrna","clipseq","coproid","createpanelrefs","createtaxdb","crisprseq","cutandrun","datasync","demo","demultiplex","denovotranscript","detaxizer","diaproteomics","differentialabundance","dualrnaseq","eager","epitopeprediction","fastquorum","fetchngs","funcscan","genomeannotator","genomeassembler","genomeskim","gwas","hgtseq","hic","hicar","hlatyping","imcyto","isoseq","lncpipe","mag","magmap","marsseq","mcmicro","meerpipe","metaboigniter","metapep","metatdenovo","methylarray","methylseq","mhcquant","mnaseseq","molkart","multiplesequencealign","nanoseq","nanostring","nascent","omicsgenetraitassociation","oncoanalyser","pairgenomealign","pangenome","pathogensurveillance","pgdb","phageannotator","phaseimpute","phyloplace","pixelator","proteinfold","proteomicslfq","radseq","rangeland","raredisease","readsimulator","reportho","riboseq","rnadnavar","rnafusion","rnaseq","rnasplice","rnavar","sammyseq","sarek","scdownstream","scnanoseq","scrnaseq","seqinspector","slamseq","smrnaseq","spatialvi","spinningjenny","taxprofiler","tbanalyzer","tfactivity","troughgraph","variantbenchmarking","variantcatalogue","viralintegration","viralrecon"]}
		{"pipeline":["airrflow","ampliseq","atacseq","bacass","bactmap","bamtofastq","cageseq","callingcards","chipseq","circdna","circrna","clipseq","coproid","createpanelrefs","createtaxdb","crisprseq","cutandrun","datasync","demo","demultiplex","denovotranscript","detaxizer","diaproteomics","differentialabundance","drugresponseeval","dualrnaseq","eager","epitopeprediction","fastquorum","fetchngs","funcscan","genomeannotator","genomeassembler","genomeskim","gwas","hgtseq","hic","hicar","hlatyping","imcyto","isoseq","lncpipe","mag","magmap","marsseq","mcmicro","meerpipe","metaboigniter","metapep","metatdenovo","methylarray","methylseq","mhcquant","mnaseseq","molkart","multiplesequencealign","nanoseq","nanostring","nascent","omicsgenetraitassociation","oncoanalyser","pairgenomealign","pangenome","pathogensurveillance","pgdb","phageannotator","phaseimpute","phyloplace","pixelator","proteinfold","proteomicslfq","radseq","rangeland","raredisease","readsimulator","reportho","riboseq","rnadnavar","rnafusion","rnaseq","rnasplice","rnavar","sammyseq","sarek","scdownstream","scnanoseq","scrnaseq","seqinspector","slamseq","smrnaseq","spatialvi","spinningjenny","taxprofiler","tbanalyzer","tfactivity","troughgraph","variantbenchmarking","variantcatalogue","viralintegration","viralrecon"]}