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Input can now be stdin

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Celine Mercier
2016-02-22 15:56:46 +01:00
parent 9ed2385fd6
commit fcb9dbcf86
3 changed files with 7 additions and 10 deletions
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13
sumaclust.c
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@ -23,7 +23,7 @@
#include "mtcompare_sumaclust.h"
#include "sumaclust.h"
#define VERSION "1.0.10"
#define VERSION "1.0.20"
/* ----------------------------------------------- */
@ -73,9 +73,10 @@ static void PrintHelp()
PP " -f : Output in FASTA format is deactivated.\n");
PP "\n");
PP "------------------------------------------------------------\n");
PP " Argument : the nucleotide dataset to cluster\n");
PP " Argument : the nucleotide dataset to cluster (or nothing \n");
PP " if the standard input should be used). \n");
PP "------------------------------------------------------------\n");
PP " http://metabarcoding.org/sumatra\n");
PP " http://metabarcoding.org/sumaclust\n");
PP "------------------------------------------------------------\n\n");
}
@ -794,7 +795,6 @@ int main(int argc, char** argv)
BOOL reverse = FALSE;
BOOL onlyATGC = TRUE;
int reference = ALILEN;
int ndb = 0;
int nproc = 1;
BOOL printBIOM = FALSE;
BOOL printOTUtable = FALSE;
@ -941,10 +941,6 @@ int main(int argc, char** argv)
}
}
ndb = argc - optind;
if (ndb != 1)
errflag++;
if (errflag)
ExitUsage(errflag);
@ -965,6 +961,7 @@ int main(int argc, char** argv)
fprintf(stderr,"Reading dataset...");
db = seq_readAllSeq2(argv[optind], TRUE, onlyATGC);
fprintf(stderr,"\n%d sequences\n",db.count);
if (db.count == 0)