Patch to fix the test scripts to use the correct binary

Description: force test scripts to use /usr/bin/bcalm

 Use /usr/bin/bcalm and not the binary in the build directory.

Author: Shayan Doust <hello@shayandoust.me>

Last-Update: 2019-09-23

---

Index: bcalm/example/run-tiny.sh

===================================================================

--- bcalm.orig/example/run-tiny.sh	2019-09-23 11:55:25.936891862 +0100

+++ bcalm/example/run-tiny.sh	2019-09-23 11:55:25.928891770 +0100

@@ -1,2 +1 @@

-bcalm=`find ../*/bcalm | head -n 1` # covers bin/ and build/ cases

-$bcalm -in tiny_read.fa -kmer-size 13 -abundance-min 1 $1 $2

+bcalm -in tiny_read.fa -kmer-size 13 -abundance-min 1 $1 $2

Index: bcalm/example/circular_unitigs_unittests/CMD

===================================================================

--- bcalm.orig/example/circular_unitigs_unittests/CMD	2019-09-23 11:55:25.936891862 +0100

+++ bcalm/example/circular_unitigs_unittests/CMD	2019-09-23 11:55:25.928891770 +0100

@@ -1,9 +1,9 @@

 #!/bin/bash

 if [ "$1" == "3" ]

 then

-    ../../build/bcalm -in test3.fa -kmer-size 7 -abundance-min 1 -minimizer-size 5

+    bcalm -in test3.fa -kmer-size 7 -abundance-min 1 -minimizer-size 5

     exit 0

 fi

-../../build/bcalm -in test1.fa -kmer-size 7 -abundance-min 1 -minimizer-size 5

+bcalm -in test1.fa -kmer-size 7 -abundance-min 1 -minimizer-size 5

fix_tests.patch

modify_cmake.patch