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Commit fc7d38fa authored by james94's avatar james94
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change resources

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...@@ -8,63 +8,62 @@ ...@@ -8,63 +8,62 @@
#### PRETEXT #### #### PRETEXT ####
unzipHiC_R1: unzipFastq_R1_HiC:
mem_mb: 500 mem_mb: 5000
time: "01:30:05" time: "01:30:05"
threads: 4 threads: 4
unzipHiC_R2: unzipFastq_R2_HiC:
mem_mb: 500 mem_mb: 5000
time: "01:30:05" time: "01:30:05"
threads: 4 threads: 4
pretext_index_PRI_asm: indexFasta_PRI:
mem_mb: 72000 mem_mb: 72000
time: "02:30:00" time: "02:30:00"
threads: 1 threads: 1
pretext_fastq2bam_R1: convertFastqTObam_R1_HiC:
mem_mb: 32000 mem_mb: 32000
time: "08:00:00" time: "08:00:00"
threads: 12 threads: 12
pretext_fastq2bam_R2: convertFastqTObam_R2_HiC:
mem_mb: 32000 mem_mb: 32000
time: "08:00:00" time: "08:00:00"
threads: 12 threads: 12
pretext_filter_5primeEnd_R1: filter5PrimeEnd_R1_HiC:
mem_mb: 200 mem_mb: 2000
time: "08:00:00" time: "08:00:00"
threads: 4 threads: 4
pretext_filter_5primeEnd_R2: filter5PrimeEnd_R2_HiC:
mem_mb: 200 mem_mb: 2000
time: "08:00:00" time: "08:00:00"
threads: 4 threads: 4
pretext_filtered_combine: pairAndCombineFiltered_HiC:
mem_mb: 9500 mem_mb: 9500
time: "08:30:00" time: "08:30:00"
threads: 12 threads: 12
pretext_map: pretextMap:
mem_mb: 32000 mem_mb: 32000
time: "08:30:00" time: "08:30:00"
threads: 12 threads: 12
pretext_snapshot: pretextSnapshot:
mem_mb: 500 mem_mb: 500
time: "00:10:00" time: "00:10:00"
threads: 1 threads: 1
unzipFasta_PRI: unzipFasta_PRI:
mem_mb: 500 mem_mb: 500
time: "00:15:00" time: "00:15:00"
...@@ -90,7 +89,7 @@ busco5: ...@@ -90,7 +89,7 @@ busco5:
threads: 16 threads: 16
genomescope2: GenomeScope2Profiles:
mem_mb: 500 mem_mb: 500
time: "00:15:00" time: "00:15:00"
threads: 1 threads: 1
...@@ -102,20 +101,20 @@ assemblyStats: ...@@ -102,20 +101,20 @@ assemblyStats:
threads: 1 threads: 1
makePDF: # ReportWithoutComparisonTables_createPDF:
mem_mb: 1000 # mem_mb: 1000
time: "00:10:05" # time: "00:10:05"
threads: 1 # threads: 1
###### Rules for illuminadb building ########## ###### Rules for illuminadb building ##########
unzipFastq_R1: unzipFastq_R1_illumina:
mem_mb: 96000 mem_mb: 96000
time: "01:45:05" time: "01:45:05"
threads: 4 threads: 4
unzipFastq_R2: unzipFastq_R2_illumina:
mem_mb: 96000 mem_mb: 96000
time: "01:45:05" time: "01:45:05"
threads: 4 threads: 4
...@@ -123,36 +122,36 @@ unzipFastq_R2: ...@@ -123,36 +122,36 @@ unzipFastq_R2:
trim10xbarcodes: trim10xBarcodes_illumina:
mem_mb: 500 mem_mb: 5000
time: "02:30:05" time: "02:30:05"
threads: 4 threads: 4
trimAdapters: trimSequencingAdapters_illumina:
mem_mb: 500 mem_mb: 5000
time: "02:30:05" time: "02:30:05"
threads: 8 threads: 8
fastqc_Illumina: fastQC_illumina:
mem_mb: 1000 mem_mb: 1000
time: "04:00:05" time: "04:00:05"
threads: 4 threads: 4
meryl_R1: merylCount_R1_illumina:
mem_mb: 20000 mem_mb: 20000
time: "01:30:05" time: "01:30:05"
threads: 12 threads: 12
meryl_R2: merylCount_R2_illumina:
mem_mb: 20000 mem_mb: 20000
time: "01:30:05" time: "01:30:05"
threads: 12 threads: 12
meryl_illumina_build: merylUnion_illumina:
mem_mb: 30000 mem_mb: 30000
time: "02:45:05" time: "02:45:05"
threads: 12 threads: 12
...@@ -162,35 +161,33 @@ meryl_illumina_build: ...@@ -162,35 +161,33 @@ meryl_illumina_build:
###### HIFI BUILD ####### ###### HIFI BUILD #######
unzipHifi: unzipFastq_hifi:
mem_mb: 128000 mem_mb: 128000
time: "01:30:05" time: "01:30:05"
threads: 4 threads: 4
trimSMRTBellAdapters_hifi:
mem_mb: 96000
time: "01:30:05"
threads: 4
fastqc_hifi: fastQC_hifi:
mem_mb: 12000 mem_mb: 12000
time: "04:00:05" time: "04:00:05"
threads: 2 threads: 2
multiqc_hifi: multiQC_hifi:
mem_mb: 4000 mem_mb: 4000
time: "01:15:05" time: "01:15:05"
threads: 2 threads: 2
meryl_hifi_count: merylCount_hifi:
mem_mb: 96000 mem_mb: 96000
time: "02:30:05" time: "02:30:05"
threads: 12 threads: 12
meryl_hifi_build: merylUnion_hifi:
mem_mb: 96000 mem_mb: 96000
time: "01:30:05" time: "01:30:05"
threads: 12 threads: 12
trimSMRTbell:
mem_mb: 96000
time: "01:30:05"
threads: 4
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