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1 parent a8f2195 commit 1055a0dCopy full SHA for 1055a0d
src/main/java/progistar/pXg/data/parser/ParameterParser.java
@@ -542,6 +542,16 @@ public static int parseParams (String[] args) {
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Parameters.readSize = Integer.parseInt(cmd.getOptionValue("bps"));
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}
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+ // --bam_partition_size
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+ if(cmd.hasOption("f")) {
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+ Parameters.proteinFastaPath = cmd.getOptionValue("f");
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+ if(!isExist(Parameters.proteinFastaPath)) {
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+ printNoSuchFileOrDirectory(Parameters.proteinFastaPath);
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+ isFail = true;
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+ }
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+
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// --threads
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if(cmd.hasOption("t")) {
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Parameters.nThreads = Integer.parseInt(cmd.getOptionValue("t"));
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