From 8d721ab5f7a6d9f8de388dc9720eb6a430ea10bf Mon Sep 17 00:00:00 2001
From: martinahansen <martinahansen@74ccb610-7750-0410-82ae-013aeee3265d>
Date: Tue, 10 Apr 2012 19:03:10 +0000
Subject: [PATCH] upgraded tests for read_fastq

git-svn-id: http://biopieces.googlecode.com/svn/trunk@1786 74ccb610-7750-0410-82ae-013aeee3265d
---
 bp_test/in/read_fastq.in.1    |   8 ++++++++
 bp_test/in/read_fastq.in.2    |  12 ++++++++++++
 bp_test/in/read_fastq.in.2.gz | Bin 0 -> 115 bytes
 bp_test/out/read_fastq.out.1  |  13 ++++---------
 bp_test/out/read_fastq.out.2  |  14 ++++++++++++--
 bp_test/out/read_fastq.out.3  |   8 ++++----
 bp_test/test/test_read_fastq  |  10 +++++-----
 7 files changed, 45 insertions(+), 20 deletions(-)
 create mode 100644 bp_test/in/read_fastq.in.1
 create mode 100644 bp_test/in/read_fastq.in.2
 create mode 100644 bp_test/in/read_fastq.in.2.gz

diff --git a/bp_test/in/read_fastq.in.1 b/bp_test/in/read_fastq.in.1
new file mode 100644
index 0000000..c070506
--- /dev/null
+++ b/bp_test/in/read_fastq.in.1
@@ -0,0 +1,8 @@
+@sanger
+aaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaa
++
+!"#$%&'()*+,-./0123456789:;<=>?@ABCDEFGHI
+@illumina1.8
+eeeeeeeeeeeeeeeeeeeeeeeeeeeeeeeeeeeeeeeeee
++
+!"#$%&'()*+,-./0123456789:;<=>?@ABCDEFGHIJ
diff --git a/bp_test/in/read_fastq.in.2 b/bp_test/in/read_fastq.in.2
new file mode 100644
index 0000000..99cfaa0
--- /dev/null
+++ b/bp_test/in/read_fastq.in.2
@@ -0,0 +1,12 @@
+@solexa
+bbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbb
++
+;<=>?@ABCDEFGHIJKLMNOPQRSTUVWXYZ[\]^_`abcdefgh
+@illumina1.3
+ccccccccccccccccccccccccccccccccccccccccc
++
+@ABCDEFGHIJKLMNOPQRSTUVWXYZ[\]^_`abcdefgh
+@illumina1.5
+ddddddddddddddddddddddddddddddddddddddd
++
+BCDEFGHIJKLMNOPQRSTUVWXYZ[\]^_`abcdefgh
diff --git a/bp_test/in/read_fastq.in.2.gz b/bp_test/in/read_fastq.in.2.gz
new file mode 100644
index 0000000000000000000000000000000000000000..77cce5eb73da34c6e6b6a0ed79017c6a37d51d4f
GIT binary patch
literal 115
zcmV-(0F3`1iwFp1f`m^119W+G0COnL&q=LF<Vqq5aA|W{+t}LKJ2*NyySTc!dw6<z
z`}q3#2LuKMhlGZOM?^+N$Hd0PCnP2%r=+H(XK*=W=H!&-X67Xt>KSt-6AOU$kY$A_
VR|;_eXaTXt0|0CwVniwd003EgFZKWc

literal 0
HcmV?d00001

diff --git a/bp_test/out/read_fastq.out.1 b/bp_test/out/read_fastq.out.1
index 4944eb4..0d70eb8 100644
--- a/bp_test/out/read_fastq.out.1
+++ b/bp_test/out/read_fastq.out.1
@@ -3,13 +3,8 @@ SEQ: aaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaa
 SEQ_LEN: 41
 SCORES: @ABCDEFGHIJKLMNOPQRSTUVWXYZ[\]^_`abcdefgh
 ---
-SEQ_NAME: solexa
-SEQ: bbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbb
-SEQ_LEN: 46
-SCORES: ;<=>?@ABCDEFGHIJKLMNOPQRSTUVWXYZ[\]^_`abcdefgh
----
-SEQ_NAME: illumina1.3
-SEQ: ccccccccccccccccccccccccccccccccccccccccc
-SEQ_LEN: 41
-SCORES: @ABCDEFGHIJKLMNOPQRSTUVWXYZ[\]^_`abcdefgh
+SEQ_NAME: illumina1.8
+SEQ: eeeeeeeeeeeeeeeeeeeeeeeeeeeeeeeeeeeeeeeeee
+SEQ_LEN: 42
+SCORES: @ABCDEFGHIJKLMNOPQRSTUVWXYZ[\]^_`abcdefghi
 ---
diff --git a/bp_test/out/read_fastq.out.2 b/bp_test/out/read_fastq.out.2
index 11fa8ee..a8451fb 100644
--- a/bp_test/out/read_fastq.out.2
+++ b/bp_test/out/read_fastq.out.2
@@ -1,5 +1,15 @@
-SEQ_NAME: sanger
-SEQ: aaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaa
+SEQ_NAME: solexa
+SEQ: bbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbb
+SEQ_LEN: 46
+SCORES: ;<=>?@ABCDEFGHIJKLMNOPQRSTUVWXYZ[\]^_`abcdefgh
+---
+SEQ_NAME: illumina1.3
+SEQ: ccccccccccccccccccccccccccccccccccccccccc
 SEQ_LEN: 41
 SCORES: @ABCDEFGHIJKLMNOPQRSTUVWXYZ[\]^_`abcdefgh
 ---
+SEQ_NAME: illumina1.5
+SEQ: ddddddddddddddddddddddddddddddddddddddd
+SEQ_LEN: 39
+SCORES: BCDEFGHIJKLMNOPQRSTUVWXYZ[\]^_`abcdefgh
+---
diff --git a/bp_test/out/read_fastq.out.3 b/bp_test/out/read_fastq.out.3
index ae6f2a8..923c528 100644
--- a/bp_test/out/read_fastq.out.3
+++ b/bp_test/out/read_fastq.out.3
@@ -1,5 +1,5 @@
-SEQ_NAME: sanger
-SEQ: aaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaa
-SEQ_LEN: 41
-SCORES: CCDDEFFGHIJKLMNOPQRSTUVWXYZ[\]^_`abcdefgh
+SEQ_NAME: solexa
+SEQ: bbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbb
+SEQ_LEN: 46
+SCORES: ;<=>?@ABCDEFGHIJKLMNOPQRSTUVWXYZ[\]^_`abcdefgh
 ---
diff --git a/bp_test/test/test_read_fastq b/bp_test/test/test_read_fastq
index 0e3f3df..6c59764 100755
--- a/bp_test/test/test_read_fastq
+++ b/bp_test/test/test_read_fastq
@@ -2,18 +2,18 @@
 
 source "$BP_DIR/bp_test/lib/test.sh"
 
-run "$bp -i $in -O $tmp"
+run "$bp -i $in.1 -O $tmp"
 assert_no_diff $tmp $out.1
 clean
 
-run "$bp -i $in.gz -O $tmp"
-assert_no_diff $tmp $out.1
+run "$bp -i $in.2 -O $tmp"
+assert_no_diff $tmp $out.2
 clean
 
-run "$bp -i $in -n 1 -O $tmp"
+run "$bp -i $in.2.gz -O $tmp"
 assert_no_diff $tmp $out.2
 clean
 
-run "$bp -i $in -n 1 -s -O $tmp"
+run "$bp -i $in.2 -n 1 -O $tmp"
 assert_no_diff $tmp $out.3
 clean
-- 
2.39.5