Imported Upstream version 0.7

[pysam.git] / tests / Makefile

diff --git a/tests/Makefile b/tests/Makefile
index 38d30f0ccf480f42f9651579297733c541bbc0a3..2b401e55d7e449c1e9b61129f7bc5894697d4707 100644 (file)
--- a/tests/Makefile
+++ b/tests/Makefile
@@ -1,11 +1,17 @@
-all: ex1.glf ex1.pileup.gz ex1.bam.bai ex1.glfview.gz \
+all: ex1.pileup.gz ex1.bam.bai \
        ex2.sam.gz ex2.sam ex1.sam \
        ex2.bam \
        ex3.bam ex3.bam.bai \
        ex4.bam ex4.bam.bai \
        ex5.bam ex5.bam.bai \
        ex6.bam \
-       ex8.bam
+       ex8.bam ex8.bam.bai \
+       ex9_nofail.bam.bai \
+       ex9_fail.bam.bai \
+        ex10.bam ex10.bam.bai \
+       example_unmapped_reads_no_sq.bam \
+       example_user_header.bam \
+       example_btag.bam
 
 ex2.sam.gz: ex1.bam ex1.bam.bai
                samtools view -h ex1.bam | gzip > ex2.sam.gz
@@ -24,10 +30,13 @@ ex1.bam:ex1.sam.gz ex1.fa.fai
                samtools index $<
 ex1.pileup.gz:ex1.bam ex1.fa
                samtools pileup -cf ex1.fa ex1.bam | gzip > ex1.pileup.gz
-ex1.glf:ex1.bam ex1.fa 
-               samtools pileup -gf ex1.fa ex1.bam > ex1.glf
-ex1.glfview.gz:ex1.glf
-               samtools glfview ex1.glf | gzip > ex1.glfview.gz
+
+example_unmapped_reads_no_sq.bam: example_unmapped_reads_no_sq.sam
+       touch tmp.list
+       samtools import tmp.list $< $@
+       rm -f tmp.list
 
 clean:
-               rm -fr *.bam *.bai *.glf* *.fai *.pileup* *~ calDepth *.dSYM pysam_*.sam ex2.sam ex2.sam.gz ex1.sam
+       rm -fr *.bam *.bai *.fai *.pileup* \
+               *~ calDepth *.dSYM pysam_*.sam \
+       ex2.sam ex2.sam.gz ex1.sam