Commit 7667eb86 by Celine Mercier

Input can now be stdin if there is only one dataset to compare with

itself.
parent 580902e0
......@@ -20,7 +20,7 @@
#include "./sumalibs/libutils/utilities.h"
#include "mtcompare_sumatra.h"
#define VERSION "1.0.10"
#define VERSION "1.0.20"
/* ----------------------------------------------- */
......@@ -84,7 +84,7 @@ static void PrintHelp()
static void ExitUsage(stat)
int stat;
{
PP "usage: sumatra [-l|L|a|n|r|d|g|x] [-t threshold_value] [-p number of threads] dataset1 [dataset2]\n");
PP "usage: sumatra [-l|L|a|n|r|d|g|x] [-t threshold_value] [-p number of threads] [dataset1] [dataset2]\n");
PP "type \"sumatra -h\" for help\n");
if (stat)
......@@ -425,8 +425,6 @@ int main(int argc, char **argv)
}
ndb = argc - optind;
if (ndb < 1)
errflag++;
if (errflag)
ExitUsage(errflag);
......
......@@ -40,12 +40,12 @@ Sumatra computes the pairwise alignment scores from one dataset or between two d
#### Input
Files must be in FASTA format.
If there is one dataset, the input can be either the standard input (stdin), or a file in FASTA format. If there are two datasets to compare, the input must be two files in FASTA format.
#### Usage
```
sumatra [-l|L|a|n|r|d|g|x] [-t threshold_value] [-p number of threads] dataset1 [dataset2]
sumatra [-l|L|a|n|r|d|g|x] [-t threshold_value] [-p number of threads] [dataset1] [dataset2]
```
First argument: the sequence dataset in fasta format to analyse.
......
No preview for this file type
Markdown is supported
0% or
You are about to add 0 people to the discussion. Proceed with caution.
Finish editing this message first!
Please register or to comment