更新 'tasks/pathseq.wdl'

185G

tasks/pathseq.wdl

@@ -31,7 +31,7 @@ task pathseq {
             -O ./ubam/${sample_id}.bam \
             -SM ${sample_id}
 
-        time gatk --java-options "-Xmx110g" PathSeqFilterSpark  \
+        time gatk --java-options "-Xmx185g" PathSeqFilterSpark  \
             --input ./ubam/${sample_id}.bam \
             --paired-output ./clean_pair_bam/${sample_id}_paired.bam \
             --unpaired-output ./clean_unpaired_bam/${sample_id}_unpaired.bam \
@@ -40,7 +40,7 @@ task pathseq {
             --filter-bwa-image ${host_image} \
             --filter-metrics filter_log/${sample_id}.log 
 
-        time gatk --java-options "-Xmx110g" PathSeqBwaSpark  \
+        time gatk --java-options "-Xmx185g" PathSeqBwaSpark  \
             --paired-input ./clean_pair_bam/${sample_id}_paired.bam \
             --unpaired-input ./clean_unpaired_bam/${sample_id}_unpaired.bam \
             --paired-output bwa_pair_bam/${sample_id}_bwa_paired.bam \
@@ -49,7 +49,7 @@ task pathseq {
             --microbe-dict ${microbe_dict}
 
 
-        time gatk --java-options "-Xmx110g" PathSeqScoreSpark  \
+        time gatk --java-options "-Xmx185g" PathSeqScoreSpark  \
             --paired-input bwa_pair_bam/${sample_id}_bwa_paired.bam \
             --unpaired-input bwa_unpair_bam/${sample_id}_bwa_unpaired.bam \
             --taxonomy-file ${microbe_taxonomy} \