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patch, config and error output
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+82
-27
lines changed

4 files changed

+82
-27
lines changed

‎conf/base.config‎

Lines changed: 1 addition & 1 deletion
Original file line numberDiff line numberDiff line change
@@ -114,6 +114,6 @@ process {
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// the CPU usage remains usually low, averaging a single CPU
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cpus = { task.attempt == 1 ? 4 : 1 }
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memory = 2.GB
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time = { task.attempt == 1 ? 4.h : ( task.attempt == 2 ? 47.h : 167.h ) }
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time = { 12.h }
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}
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}

‎modules.json‎

Lines changed: 61 additions & 21 deletions
Original file line numberDiff line numberDiff line change
@@ -8,95 +8,129 @@
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"blast/blastn": {
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"branch": "master",
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"git_sha": "666652151335353eef2fcd58880bcef5bc2928e1",
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"installed_by": ["modules"],
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"installed_by": [
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"modules"
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],
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"patch": "modules/nf-core/blast/blastn/blast-blastn.diff"
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},
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"busco/busco": {
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"branch": "master",
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"git_sha": "666652151335353eef2fcd58880bcef5bc2928e1",
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"installed_by": ["modules"],
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"installed_by": [
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"modules"
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],
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"patch": "modules/nf-core/busco/busco/busco-busco.diff"
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},
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"cat/cat": {
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"branch": "master",
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"git_sha": "08108058ea36a63f141c25c4e75f9f872a5b2296",
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"installed_by": ["modules"]
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"installed_by": [
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"modules"
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]
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},
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"diamond/blastp": {
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"branch": "master",
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"git_sha": "666652151335353eef2fcd58880bcef5bc2928e1",
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"installed_by": ["modules"],
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"installed_by": [
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"modules"
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],
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"patch": "modules/nf-core/diamond/blastp/diamond-blastp.diff"
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},
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"diamond/blastx": {
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"branch": "master",
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"git_sha": "666652151335353eef2fcd58880bcef5bc2928e1",
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"installed_by": ["modules"],
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"installed_by": [
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"modules"
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],
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"patch": "modules/nf-core/diamond/blastx/diamond-blastx.diff"
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},
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"fastawindows": {
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"branch": "master",
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"git_sha": "666652151335353eef2fcd58880bcef5bc2928e1",
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"installed_by": ["modules"],
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"installed_by": [
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"modules"
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],
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"patch": "modules/nf-core/fastawindows/fastawindows.diff"
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},
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"gunzip": {
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"branch": "master",
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"git_sha": "666652151335353eef2fcd58880bcef5bc2928e1",
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"installed_by": ["modules"]
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"installed_by": [
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"modules"
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]
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},
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"minimap2/align": {
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"branch": "master",
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"git_sha": "666652151335353eef2fcd58880bcef5bc2928e1",
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"installed_by": ["modules"],
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"installed_by": [
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"modules"
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],
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"patch": "modules/nf-core/minimap2/align/minimap2-align.diff"
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},
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"multiqc": {
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"branch": "master",
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"git_sha": "f0719ae309075ae4a291533883847c3f7c441dad",
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"installed_by": ["modules"]
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"installed_by": [
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"modules"
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]
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},
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"pigz/compress": {
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"branch": "master",
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"git_sha": "666652151335353eef2fcd58880bcef5bc2928e1",
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"installed_by": ["modules"]
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"installed_by": [
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"modules"
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]
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},
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"samtools/flagstat": {
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"branch": "master",
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"git_sha": "2d20463181b1c38981a02e90d3084b5f9fa8d540",
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"installed_by": ["modules"]
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"installed_by": [
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"modules"
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]
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},
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"samtools/index": {
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"branch": "master",
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"git_sha": "b13f07be4c508d6ff6312d354d09f2493243e208",
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"installed_by": ["modules"]
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"installed_by": [
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"modules"
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]
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},
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"samtools/view": {
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"branch": "master",
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"git_sha": "2d20463181b1c38981a02e90d3084b5f9fa8d540",
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"installed_by": ["modules"],
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"installed_by": [
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"modules"
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],
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"patch": "modules/nf-core/samtools/view/samtools-view.diff"
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},
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"seqtk/subseq": {
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"branch": "master",
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"git_sha": "666652151335353eef2fcd58880bcef5bc2928e1",
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"installed_by": ["modules"],
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"installed_by": [
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"modules"
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],
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"patch": "modules/nf-core/seqtk/subseq/seqtk-subseq.diff"
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},
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"untar": {
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"branch": "master",
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"git_sha": "666652151335353eef2fcd58880bcef5bc2928e1",
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"installed_by": ["modules"]
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"installed_by": [
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"modules"
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]
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},
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"windowmasker/mkcounts": {
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"branch": "master",
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"git_sha": "666652151335353eef2fcd58880bcef5bc2928e1",
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"installed_by": ["modules"]
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"installed_by": [
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"modules"
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]
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},
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"windowmasker/ustat": {
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"branch": "master",
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"git_sha": "666652151335353eef2fcd58880bcef5bc2928e1",
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"installed_by": ["modules"]
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"installed_by": [
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"modules"
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]
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}
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}
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},
@@ -105,20 +139,26 @@
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"utils_nextflow_pipeline": {
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"branch": "master",
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"git_sha": "c2b22d85f30a706a3073387f30380704fcae013b",
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"installed_by": ["subworkflows"]
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"installed_by": [
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"subworkflows"
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]
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},
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"utils_nfcore_pipeline": {
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"branch": "master",
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"git_sha": "51ae5406a030d4da1e49e4dab49756844fdd6c7a",
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"installed_by": ["subworkflows"]
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"installed_by": [
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"subworkflows"
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]
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},
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"utils_nfschema_plugin": {
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"branch": "master",
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"git_sha": "2fd2cd6d0e7b273747f32e465fdc6bcc3ae0814e",
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"installed_by": ["subworkflows"]
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"installed_by": [
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"subworkflows"
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]
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}
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}
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}
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}
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}
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}
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}

‎modules/nf-core/blast/blastn/blast-blastn.diff‎

Lines changed: 19 additions & 4 deletions
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‎modules/nf-core/blast/blastn/main.nf‎

Lines changed: 1 addition & 1 deletion
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