# HG changeset patch
# User iuc
# Date 1565987191 14400
# Node ID 19793eecc9f0e33c5b21de2c66438793d3f409c8
# Parent 49b819f88c2b7aa5e84f70a70a2ba1d7ca9f8c1e
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/blob/master/tools/tb-profiler commit 5679ad1f1d5cac6c6168ad91dd4ca3616d22ca35"
diff -r 49b819f88c2b -r 19793eecc9f0 macros.xml
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/macros.xml Fri Aug 16 16:26:31 2019 -0400
@@ -0,0 +1,3 @@
+
+ 2.6
+
diff -r 49b819f88c2b -r 19793eecc9f0 tb_profiler_profile.xml
--- a/tb_profiler_profile.xml Tue Jul 16 08:29:18 2019 -0400
+++ b/tb_profiler_profile.xml Fri Aug 16 16:26:31 2019 -0400
@@ -1,7 +1,10 @@
-
+
Infer strain types and drug resistance markers from sequences
+
+ macros.xml
+
- tb-profiler
+ tb-profiler
bowtie2
+
+
diff -r 49b819f88c2b -r 19793eecc9f0 test-data/example.vcf
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/test-data/example.vcf Fri Aug 16 16:26:31 2019 -0400
@@ -0,0 +1,18 @@
+##fileformat=VCFv4.0
+##INFO=
+##INFO=
+##INFO=
+##INFO=
+##FORMAT=
+#CHROM POS ID REF ALT QUAL FILTER INFO FORMAT X1 X2 X3 X4 X5 X6
+1 10 1:10 A T 100 PASS NS=5;AC=0;AN=10;AF=0.000000 GT 0/0 ./. 0/0 0/0 0/0 0/0
+1 20 1:20 G C 100 PASS NS=0;AC=0;AN=0 GT ./. ./. ./. ./. ./. ./.
+1 30 1:30 C A 100 PASS NS=6;AC=0;AN=12;AF=0.000000 GT 0/0 0/0 0/0 0/0 0/0 0/0
+1 40 1:40 A C 100 PASS NS=6;AC=0;AN=12;AF=0.000000 GT 0/0 0/0 0/0 0/0 0/0 0/0
+1 10000 1:10000 G C 100 PASS NS=6;AC=0;AN=12;AF=0.000000 GT 0/0 0/0 0/0 0/0 0/0 0/0
+1 20000 1:20000 T A 100 PASS NS=6;AC=12;AN=12;AF=1.000000 GT 1/1 1/1 1/1 1/1 1/1 1/1
+4 5000 4:5000 A T 100 PASS NS=6;AC=12;AN=12;AF=1.000000 GT 1/1 1/1 1/1 1/1 1/1 1/1
+4 6000 4:6000 C T 100 PASS NS=6;AC=11;AN=12;AF=0.916667 GT 1/1 1/1 1/1 1/1 0/1 1/1
+X 800 X:800 A C 100 PASS NS=6;AC=12;AN=12;AF=1.000000 GT 1/1 1/1 1/1 1/1 1/1 1/1
+X 900 X:900 A T 100 PASS NS=6;AC=12;AN=12;AF=1.000000 GT 1/1 1/1 1/1 1/1 1/1 1/1
+X 1000 X:1000 T G 100 PASS NS=5;AC=10;AN=10;AF=1.000000 GT 1/1 1/1 1/1 1/1 1/1 ./.
diff -r 49b819f88c2b -r 19793eecc9f0 test-data/example.vcf.gz
Binary file test-data/example.vcf.gz has changed
diff -r 49b819f88c2b -r 19793eecc9f0 test-data/rif_resistant.bam
Binary file test-data/rif_resistant.bam has changed