From 1d82bc9f86431772718831a7b6f99726aa1524ea Mon Sep 17 00:00:00 2001
From: Torsten Seemann <torsten.seemann@monash.edu>
Date: Wed, 23 May 2012 16:18:24 +1000
Subject: [PATCH] Added new tests for new velveth -interleaved and -separate
 options

---
 tests/fasta_eq_fastq_ascii.t    |  2 --
 tests/fasta_eq_fastq_binary.t   |  2 --
 tests/interleaved_eq_separate.t | 22 ++++++++++++++++++++++
 tests/mismatched_separates.t    | 19 +++++++++++++++++++
 tests/run-tests.sh              |  9 +++++----
 5 files changed, 46 insertions(+), 8 deletions(-)
 create mode 100755 tests/interleaved_eq_separate.t
 create mode 100755 tests/mismatched_separates.t

diff --git a/tests/fasta_eq_fastq_ascii.t b/tests/fasta_eq_fastq_ascii.t
index 79333b7..ad509fe 100755
--- a/tests/fasta_eq_fastq_ascii.t
+++ b/tests/fasta_eq_fastq_ascii.t
@@ -1,5 +1,3 @@
-#!/bin/bash
-
 # load shared functions and variables
 . `dirname $0`/run-tests.functions
 
diff --git a/tests/fasta_eq_fastq_binary.t b/tests/fasta_eq_fastq_binary.t
index 47273e8..656d7b8 100755
--- a/tests/fasta_eq_fastq_binary.t
+++ b/tests/fasta_eq_fastq_binary.t
@@ -1,5 +1,3 @@
-#!/bin/bash
-
 # load shared functions and variables
 . `dirname $0`/run-tests.functions
 
diff --git a/tests/interleaved_eq_separate.t b/tests/interleaved_eq_separate.t
new file mode 100755
index 0000000..215baa9
--- /dev/null
+++ b/tests/interleaved_eq_separate.t
@@ -0,0 +1,22 @@
+# load shared functions and variables
+. `dirname $0`/run-tests.functions 
+
+$VH $DIR/fai $K -shortPaired -fasta.gz $FAI                > /dev/null
+$VH $DIR/fas $K -shortPaired -fasta.gz -separate $FAL $FAR > /dev/null
+$VH $DIR/fqi $K -shortPaired -fastq.gz $FQI                > /dev/null
+$VH $DIR/fqs $K -shortPaired -fastq.gz -separate $FQL $FQR > /dev/null
+
+cmp --quiet $DIR/fai/Sequences $DIR/fas/Sequences
+if [ $? -ne 0 ]; then
+  problem "$FAI and $FAL+$FAR produced different Sequences file"
+else
+  inform "ok"
+fi
+
+cmp --quiet $DIR/fai/Sequences $DIR/fqs/Sequences
+if [ $? -ne 0 ]; then
+  problem "$FAI and $FQL+$FQR produced different Sequences file"
+else
+  inform "ok"
+fi
+
diff --git a/tests/mismatched_separates.t b/tests/mismatched_separates.t
new file mode 100755
index 0000000..b255646
--- /dev/null
+++ b/tests/mismatched_separates.t
@@ -0,0 +1,19 @@
+# load shared functions and variables
+. `dirname $0`/run-tests.functions 
+
+# forget to give 2 files
+$VH $DIR/fas $K -shortPaired -fasta.gz -separate $FAL 1> /dev/null 2> /dev/null
+if [ $? -eq 0 ]; then
+  problem "$VH did not fail when given only one file for -shortPaired -separate"
+else
+  inform "ok"
+fi
+
+# files have diff number of seqs in them
+$VH $DIR/fas $K -shortPaired -fasta.gz -separate $FAL /dev/zero 1> /dev/null 2> /dev/null  
+if [ $? -eq 0 ]; then
+  problem "$VH did not fail when given mis-matched reads files in -shortPaired -separate" 
+else
+  inform "ok"
+fi
+
diff --git a/tests/run-tests.sh b/tests/run-tests.sh
index 09e5321..2c4f8e8 100755
--- a/tests/run-tests.sh
+++ b/tests/run-tests.sh
@@ -3,12 +3,14 @@
 # load shared functions and variables
 . `dirname $0`/run-tests.functions
 
+inform "Running Velvet Test Suite"
+
 # check we have our binaries and test files
 for FILE in $VH $VG $SEQ $ROADMAP $FQL $FQR $FQI $FAL $FAR $FAI ; do
   if [ ! -r $FILE ]; then
     problem "required testing file '$FILE' not found"
   else
-    inform "ok, found $FILE" 
+    inform "Found $FILE, ok" 
   fi
 done
 
@@ -31,6 +33,5 @@ inform "removing test folder: $DIR"
 rm -fr ./$DIR
 
 # all done
-inform "passed all $NUMTESTS tests!"
-
-
+inform "passed all $NUMTESTS tests"
+inform "hooray!"