Merge pull request #150 from FrancescoSantini/resmem

added rounding in dynamic resource specification

snakefile.py

@@ -257,7 +257,7 @@ def lookup(column, predicate, fields=[]):
   output: 
     os.path.join(OUTPUT_DIR, 'input_annotation_stats.tsv')
   resources:
-    mem_mb = lambda wc, input: max(1.5 * input.size_mb, config['execution']['rules']['check_annotation_files']['memory'])
+    mem_mb = lambda wc, input: max(round(1.5 * input.size_mb), config['execution']['rules']['check_annotation_files']['memory'])
   log: os.path.join(LOG_DIR, 'check_annotation_files.log')
   shell: "{RSCRIPT_EXEC} {SCRIPTS_DIR}/validate_input_annotation.R {input.gtf} {input.cdna} {input.dna} {OUTPUT_DIR} >> {log} 2>&1"
 
@@ -420,7 +420,7 @@ def hisat2_file_arguments(args):
     os.path.join(MAPPED_READS_DIR, 'hisat2', '{sample}_Aligned.sortedByCoord.out.bam')
   resources:
     mem_mb = config['execution']['rules']['hisat2_map']['memory'],
-    disk_mb=lambda wc, input: max(3 * input.size_mb, config['execution']['rules']['hisat2_map']['disk_mb'])
+    disk_mb = lambda wc, input: max(round(4 * input.size_mb), config['execution']['rules']['hisat2_map']['disk_mb'])
   params:
     samfile = lambda wildcards: os.path.join(MAPPED_READS_DIR, 'hisat2', "_".join([wildcards.sample, 'Aligned.out.sam'])),
     index_dir = rules.hisat2_index.params.index_directory,