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update components.json
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@mashehu
mashehu committed Oct 11, 2024
1 parent 3b023bf commit f659497
Showing 1 changed file with 57 additions and 48 deletions.
105 changes: 57 additions & 48 deletions public/components.json
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Original file line number Diff line number Diff line change
Expand Up @@ -7684,6 +7684,10 @@
"name": "rnafusion",
"version": "3.0.2"
},
{
"name": "rnafusion",
"version": "3.0.2"
},
{
"name": "rnafusion",
"version": "3.0.2"
Expand Down Expand Up @@ -25139,6 +25143,14 @@
"name": "genomeassembler",
"version": "dev"
},
{
"name": "pathogensurveillance",
"version": "dev"
},
{
"name": "genomeassembler",
"version": "dev"
},
{
"name": "pathogensurveillance",
"version": "dev"
Expand Down Expand Up @@ -106885,6 +106897,10 @@
"name": "genomeassembler",
"version": "dev"
},
{
"name": "genomeassembler",
"version": "dev"
},
{
"name": "genomeassembler",
"version": "dev"
Expand Down Expand Up @@ -167365,9 +167381,8 @@
"log_final": [
{
"meta": {
"type": "file",
"description": "STAR final log file",
"pattern": "*Log.final.out"
"type": "map",
"description": "Groovy Map containing sample information\ne.g. [ id:'test', single_end:false ]\n"
}
},
{
Expand All @@ -167383,9 +167398,8 @@
"log_out": [
{
"meta": {
"type": "file",
"description": "STAR lot out file",
"pattern": "*Log.out"
"type": "map",
"description": "Groovy Map containing sample information\ne.g. [ id:'test', single_end:false ]\n"
}
},
{
Expand All @@ -167401,9 +167415,8 @@
"log_progress": [
{
"meta": {
"type": "file",
"description": "STAR log progress file",
"pattern": "*Log.progress.out"
"type": "map",
"description": "Groovy Map containing sample information\ne.g. [ id:'test', single_end:false ]\n"
}
},
{
Expand All @@ -167430,9 +167443,8 @@
"bam": [
{
"meta": {
"type": "file",
"description": "Output BAM file containing read alignments",
"pattern": "*.{bam}"
"type": "map",
"description": "Groovy Map containing sample information\ne.g. [ id:'test', single_end:false ]\n"
}
},
{
Expand All @@ -167448,9 +167460,8 @@
"bam_sorted": [
{
"meta": {
"type": "file",
"description": "Sorted BAM file of read alignments (optional)",
"pattern": "*sortedByCoord.out.bam"
"type": "map",
"description": "Groovy Map containing sample information\ne.g. [ id:'test', single_end:false ]\n"
}
},
{
Expand All @@ -167465,20 +167476,26 @@
{
"bam_sorted_aligned": [
{
"meta": {}
"meta": {
"type": "map",
"description": "Groovy Map containing sample information\ne.g. [ id:'test', single_end:false ]\n"
}
},
{
"${prefix}.Aligned.sortedByCoord.out.bam": {}
"${prefix}.Aligned.sortedByCoord.out.bam": {
"type": "file",
"description": "Sorted BAM file of read alignments (optional)",
"pattern": "*.Aligned.sortedByCoord.out.bam"
}
}
]
},
{
"bam_transcript": [
{
"meta": {
"type": "file",
"description": "Output BAM file of transcriptome alignment (optional)",
"pattern": "*toTranscriptome.out.bam"
"type": "map",
"description": "Groovy Map containing sample information\ne.g. [ id:'test', single_end:false ]\n"
}
},
{
Expand All @@ -167494,9 +167511,8 @@
"bam_unsorted": [
{
"meta": {
"type": "file",
"description": "Unsorted BAM file of read alignments (optional)",
"pattern": "*Aligned.unsort.out.bam"
"type": "map",
"description": "Groovy Map containing sample information\ne.g. [ id:'test', single_end:false ]\n"
}
},
{
Expand All @@ -167512,9 +167528,8 @@
"fastq": [
{
"meta": {
"type": "file",
"description": "Unmapped FastQ files (optional)",
"pattern": "*fastq.gz"
"type": "map",
"description": "Groovy Map containing sample information\ne.g. [ id:'test', single_end:false ]\n"
}
},
{
Expand All @@ -167530,9 +167545,8 @@
"tab": [
{
"meta": {
"type": "file",
"description": "STAR output tab file(s) (optional)",
"pattern": "*.tab"
"type": "map",
"description": "Groovy Map containing sample information\ne.g. [ id:'test', single_end:false ]\n"
}
},
{
Expand All @@ -167549,14 +167563,13 @@
{
"meta": {
"type": "map",
"description": "Groovy Map containing sample information\ne.g. [ id:'test', single_end:false ]\n",
"pattern": "*.SJ.out.tab"
"description": "Groovy Map containing sample information\ne.g. [ id:'test', single_end:false ]\n"
}
},
{
"*.SJ.out.tab": {
"type": "map",
"description": "Groovy Map containing sample information\ne.g. [ id:'test', single_end:false ]\n",
"type": "file",
"description": "STAR output splice junction tab file",
"pattern": "*.SJ.out.tab"
}
}
Expand All @@ -167567,14 +167580,13 @@
{
"meta": {
"type": "map",
"description": "Groovy Map containing sample information\ne.g. [ id:'test', single_end:false ]\n",
"pattern": "*.ReadsPerGene.out.tab"
"description": "Groovy Map containing sample information\ne.g. [ id:'test', single_end:false ]\n"
}
},
{
"*.ReadsPerGene.out.tab": {
"type": "map",
"description": "Groovy Map containing sample information\ne.g. [ id:'test', single_end:false ]\n",
"type": "file",
"description": "STAR output read per gene tab file",
"pattern": "*.ReadsPerGene.out.tab"
}
}
Expand All @@ -167584,9 +167596,8 @@
"junction": [
{
"meta": {
"type": "file",
"description": "STAR chimeric junction output file (optional)",
"pattern": "*.out.junction"
"type": "map",
"description": "Groovy Map containing sample information\ne.g. [ id:'test', single_end:false ]\n"
}
},
{
Expand All @@ -167609,8 +167620,8 @@
},
{
"*.out.sam": {
"type": "map",
"description": "Groovy Map containing sample information\ne.g. [ id:'test', single_end:false ]\n",
"type": "file",
"description": "STAR output SAM file(s) (optional)",
"pattern": "*.out.sam"
}
}
Expand All @@ -167620,9 +167631,8 @@
"wig": [
{
"meta": {
"type": "file",
"description": "STAR output wiggle format file(s) (optional)",
"pattern": "*.wig"
"type": "map",
"description": "Groovy Map containing sample information\ne.g. [ id:'test', single_end:false ]\n"
}
},
{
Expand All @@ -167638,9 +167648,8 @@
"bedgraph": [
{
"meta": {
"type": "file",
"description": "STAR output bedGraph format file(s) (optional)",
"pattern": "*.bg"
"type": "map",
"description": "Groovy Map containing sample information\ne.g. [ id:'test', single_end:false ]\n"
}
},
{
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