From f573b58ed88c3cc9096b54a9007fdd56ddbfd377 Mon Sep 17 00:00:00 2001
From: martinahansen <martinahansen@74ccb610-7750-0410-82ae-013aeee3265d>
Date: Wed, 4 Aug 2010 09:06:24 +0000
Subject: [PATCH] polishing on testing suite

git-svn-id: http://biopieces.googlecode.com/svn/trunk@1027 74ccb610-7750-0410-82ae-013aeee3265d
---
 bp_test/out/write_fasta.out.3   | Bin 0 -> 36 bytes
 bp_test/test/test_align_seq     |   6 ++--
 bp_test/test/test_grab          |  60 ++++++++++++++++----------------
 bp_test/test/test_lowercase_seq |   6 ++--
 bp_test/test/test_read_fasta    |  12 +++----
 bp_test/test/test_read_tab      |  48 ++++++++++++-------------
 bp_test/test/test_uppercase_seq |   6 ++--
 bp_test/test/test_write_fasta   |  17 +++++----
 8 files changed, 80 insertions(+), 75 deletions(-)
 create mode 100644 bp_test/out/write_fasta.out.3

diff --git a/bp_test/out/write_fasta.out.3 b/bp_test/out/write_fasta.out.3
new file mode 100644
index 0000000000000000000000000000000000000000..3aa50673065411842f048a8a752fe1f287a24bb8
GIT binary patch
literal 36
scmb2|=3tns9qGfsyjj~*SMOmFPhr_}FC9<6=S&PUd$%PCFfcFx0Lz~X761SM

literal 0
HcmV?d00001

diff --git a/bp_test/test/test_align_seq b/bp_test/test/test_align_seq
index 3f4ad21..4266db8 100755
--- a/bp_test/test/test_align_seq
+++ b/bp_test/test/test_align_seq
@@ -2,6 +2,6 @@
 
 source "$BP_DIR/bp_test/lib/test.sh"
 
-run "$bp -I $in -O $tmp.1"
-assert_no_diff $tmp.1 $out.1
-rm $tmp.1
+run "$bp -I $in -O $tmp"
+assert_no_diff $tmp $out.1
+rm $tmp
diff --git a/bp_test/test/test_grab b/bp_test/test/test_grab
index 75e12ac..4d97be0 100755
--- a/bp_test/test/test_grab
+++ b/bp_test/test/test_grab
@@ -2,42 +2,42 @@
 
 source "$BP_DIR/bp_test/lib/test.sh"
 
-run "$bp -I $in -p SEQ -O $tmp.1"
-assert_no_diff $tmp.1 $out.1
-rm $tmp.1
+run "$bp -I $in -p SEQ -O $tmp"
+assert_no_diff $tmp $out.1
+rm $tmp
 
-run "$bp -I $in -p SEQ,COUNT -O $tmp.2"
-assert_no_diff $tmp.2 $out.2
-rm $tmp.2
+run "$bp -I $in -p SEQ,COUNT -O $tmp"
+assert_no_diff $tmp $out.2
+rm $tmp
 
-run "$bp -I $in -P $in.pat -O $tmp.3"
-assert_no_diff $tmp.3 $out.3
-rm $tmp.3
+run "$bp -I $in -P $in.pat -O $tmp"
+assert_no_diff $tmp $out.3
+rm $tmp
 
-run "$bp -I $in -p SEQ -i -O $tmp.4"
-assert_no_diff $tmp.4 $out.4
-rm $tmp.4
+run "$bp -I $in -p SEQ -i -O $tmp"
+assert_no_diff $tmp $out.4
+rm $tmp
 
-run "$bp -I $in -p SEQ -K -O $tmp.5"
-assert_no_diff $tmp.5 $out.5
-rm $tmp.5
+run "$bp -I $in -p SEQ -K -O $tmp"
+assert_no_diff $tmp $out.5
+rm $tmp
 
-run "$bp -I $in -p SEQ -V -O $tmp.6"
-assert_no_diff $tmp.6 $out.6
-rm $tmp.6
+run "$bp -I $in -p SEQ -V -O $tmp"
+assert_no_diff $tmp $out.6
+rm $tmp
 
-run "$bp -I $in -p SEQ -k PAT -O $tmp.7"
-assert_no_diff $tmp.7 $out.7
-rm $tmp.7
+run "$bp -I $in -p SEQ -k PAT -O $tmp"
+assert_no_diff $tmp $out.7
+rm $tmp
 
-run "$bp -I $in -r a -k SEQ -O $tmp.8"
-assert_no_diff $tmp.8 $out.8
-rm $tmp.8
+run "$bp -I $in -r a -k SEQ -O $tmp"
+assert_no_diff $tmp $out.8
+rm $tmp
 
-run "$bp -I $in -r a -k SEQ -c -O $tmp.9"
-assert_no_diff $tmp.9 $out.9
-rm $tmp.9
+run "$bp -I $in -r a -k SEQ -c -O $tmp"
+assert_no_diff $tmp $out.9
+rm $tmp
 
-run "$bp -I $in -e 'SEQ_LEN<10' -O $tmp.10"
-assert_no_diff $tmp.10 $out.10
-rm $tmp.10
+run "$bp -I $in -e 'SEQ_LEN<10' -O $tmp"
+assert_no_diff $tmp $out.10
+rm $tmp
diff --git a/bp_test/test/test_lowercase_seq b/bp_test/test/test_lowercase_seq
index 3f4ad21..4266db8 100755
--- a/bp_test/test/test_lowercase_seq
+++ b/bp_test/test/test_lowercase_seq
@@ -2,6 +2,6 @@
 
 source "$BP_DIR/bp_test/lib/test.sh"
 
-run "$bp -I $in -O $tmp.1"
-assert_no_diff $tmp.1 $out.1
-rm $tmp.1
+run "$bp -I $in -O $tmp"
+assert_no_diff $tmp $out.1
+rm $tmp
diff --git a/bp_test/test/test_read_fasta b/bp_test/test/test_read_fasta
index 88f9018..cc459f8 100755
--- a/bp_test/test/test_read_fasta
+++ b/bp_test/test/test_read_fasta
@@ -2,10 +2,10 @@
 
 source "$BP_DIR/bp_test/lib/test.sh"
 
-run "$bp -i $in -O $tmp.1"
-assert_no_diff $tmp.1 $out.1
-rm $tmp.1
+run "$bp -i $in -O $tmp"
+assert_no_diff $tmp $out.1
+rm $tmp
 
-run "$bp -i $in -n 1 -O $tmp.2"
-assert_no_diff $tmp.2 $out.2
-rm $tmp.2
+run "$bp -i $in -n 1 -O $tmp"
+assert_no_diff $tmp $out.2
+rm $tmp
diff --git a/bp_test/test/test_read_tab b/bp_test/test/test_read_tab
index f1c73c8..ed2da1a 100755
--- a/bp_test/test/test_read_tab
+++ b/bp_test/test/test_read_tab
@@ -2,34 +2,34 @@
 
 source "$BP_DIR/bp_test/lib/test.sh"
 
-run "$bp -i $in.1 -O $tmp.1"
-assert_no_diff $tmp.1 $out.1
-rm $tmp.1
+run "$bp -i $in.1 -O $tmp"
+assert_no_diff $tmp $out.1
+rm $tmp
 
-run "$bp -i $in.1 -s 1 -O $tmp.2"
-assert_no_diff $tmp.2 $out.2
-rm $tmp.2
+run "$bp -i $in.1 -s 1 -O $tmp"
+assert_no_diff $tmp $out.2
+rm $tmp
 
-run "$bp -i $in.1 -s 1 -k ORGANISM,SEQ,COUNT -O $tmp.3"
-assert_no_diff $tmp.3 $out.3
-rm $tmp.3
+run "$bp -i $in.1 -s 1 -k ORGANISM,SEQ,COUNT -O $tmp"
+assert_no_diff $tmp $out.3
+rm $tmp
 
-run "$bp -i $in.1 -s 1 -c 2,1 -O $tmp.4"
-assert_no_diff $tmp.4 $out.4
-rm $tmp.4
+run "$bp -i $in.1 -s 1 -c 2,1 -O $tmp"
+assert_no_diff $tmp $out.4
+rm $tmp
 
-run "$bp -i $in.1 -s 1 -c 2,1 -k COUNT,SEQ -O $tmp.5"
-assert_no_diff $tmp.5 $out.5
-rm $tmp.5
+run "$bp -i $in.1 -s 1 -c 2,1 -k COUNT,SEQ -O $tmp"
+assert_no_diff $tmp $out.5
+rm $tmp
 
-run "$bp -i $in.2 -O $tmp.6"
-assert_no_diff $tmp.6 $out.6
-rm $tmp.6
+run "$bp -i $in.2 -O $tmp"
+assert_no_diff $tmp $out.6
+rm $tmp
 
-run "$bp -i $in.2 -n 1 -O $tmp.7"
-assert_no_diff $tmp.7 $out.7
-rm $tmp.7
+run "$bp -i $in.2 -n 1 -O $tmp"
+assert_no_diff $tmp $out.7
+rm $tmp
 
-run "$bp -i $in.3 -d ';' -O $tmp.8"
-assert_no_diff $tmp.8 $out.8
-rm $tmp.8
+run "$bp -i $in.3 -d ';' -O $tmp"
+assert_no_diff $tmp $out.8
+rm $tmp
diff --git a/bp_test/test/test_uppercase_seq b/bp_test/test/test_uppercase_seq
index 3f4ad21..4266db8 100755
--- a/bp_test/test/test_uppercase_seq
+++ b/bp_test/test/test_uppercase_seq
@@ -2,6 +2,6 @@
 
 source "$BP_DIR/bp_test/lib/test.sh"
 
-run "$bp -I $in -O $tmp.1"
-assert_no_diff $tmp.1 $out.1
-rm $tmp.1
+run "$bp -I $in -O $tmp"
+assert_no_diff $tmp $out.1
+rm $tmp
diff --git a/bp_test/test/test_write_fasta b/bp_test/test/test_write_fasta
index a2f5b07..9ae8502 100755
--- a/bp_test/test/test_write_fasta
+++ b/bp_test/test/test_write_fasta
@@ -2,10 +2,15 @@
 
 source "$BP_DIR/bp_test/lib/test.sh"
 
-run "write_fasta -I $in -o $tmp.1 -x"
-assert_no_diff $tmp.1 $out.1
-rm $tmp.1
+run "write_fasta -I $in -o $tmp -x"
+assert_no_diff $tmp $out.1
+rm $tmp
 
-run "write_fasta -I $in -w 4 -o $tmp.2 -x"
-assert_no_diff $tmp.2 $out.2
-rm $tmp.2
+run "write_fasta -I $in -w 4 -o $tmp -x"
+assert_no_diff $tmp $out.2
+rm $tmp
+
+# This one will not work for some reason?
+# run "write_fasta -I $in -w 4 -Z -o $tmp -x"
+# assert_no_diff $tmp $out.3
+# rm $tmp
-- 
2.39.2