Changeset: d8e1c8df9106 for MonetDB
URL: http://dev.monetdb.org/hg/MonetDB?cmd=changeset;node=d8e1c8df9106
Added Files:
sql/backends/monet5/bamloader/Tests/load.sql.in
sql/backends/monet5/bamloader/Tests/sort
Removed Files:
sql/backends/monet5/bamloader/Tests/load.sql.src
sql/backends/monet5/bamloader/Tests/sort.cmd.src
Branch: bamloader
Log Message:
Some fixes to bam tests.
Do not use absolute path names in tests.
diffs (21 lines):
diff --git a/sql/backends/monet5/bamloader/Tests/load.sql.src
b/sql/backends/monet5/bamloader/Tests/load.sql.in
rename from sql/backends/monet5/bamloader/Tests/load.sql.src
rename to sql/backends/monet5/bamloader/Tests/load.sql.in
--- a/sql/backends/monet5/bamloader/Tests/load.sql.src
+++ b/sql/backends/monet5/bamloader/Tests/load.sql.in
@@ -1,2 +1,2 @@
-CALL
bam_loader_repos('/export/scratch2/robin/Monet_bamloader/SOURCE/MonetDB/sql/backends/monet5/bamloader/Tests/bam',
0, 8);
-CALL
bam_loader_repos('/export/scratch2/robin/Monet_bamloader/SOURCE/MonetDB/sql/backends/monet5/bamloader/Tests/bam/queryname',
1, 8);
+CALL bam_loader_repos('$QTSTSRCDIR/bam', 0, 8);
+CALL bam_loader_repos('$QTSTSRCDIR/bam/queryname', 1, 8);
diff --git a/sql/backends/monet5/bamloader/Tests/sort.cmd.src
b/sql/backends/monet5/bamloader/Tests/sort
rename from sql/backends/monet5/bamloader/Tests/sort.cmd.src
rename to sql/backends/monet5/bamloader/Tests/sort
--- a/sql/backends/monet5/bamloader/Tests/sort.cmd.src
+++ b/sql/backends/monet5/bamloader/Tests/sort
@@ -1,3 +1,3 @@
-/export/scratch2/robin/samtools/samtools-0.1.19/samtools sort -f -n -@ 32
/export/scratch2/robin/Monet_bamloader/SOURCE/MonetDB/sql/backends/monet5/bamloader/Tests/bam/toy.bam
/export/scratch2/robin/Monet_bamloader/SOURCE/MonetDB/sql/backends/monet5/bamloader/Tests/bam/queryname/toy.bam
+samtools sort -f -n -@ 32 $TSTSRCDIR/bam/toy.bam
$TSTSRCDIR/bam/queryname/toy.bam
-/export/scratch2/robin/samtools/samtools-0.1.19/samtools index
/export/scratch2/robin/Monet_bamloader/SOURCE/MonetDB/sql/backends/monet5/bamloader/Tests/bam/toy_coordinate.bam
+samtools index $TSTSRCDIR/bam/toy_coordinate.bam
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