[med-svn] [htslib] 01/06: faidx: Detect compressed BGZF fasta files and create .gzi index without asking to allow proper functioning of samtools faidx fasta.fa.gz

[Charles Plessy]

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plessy pushed a commit to branch debian/unstable
in repository htslib.

commit d49f20eafc4eeaa945f41fb5a33677971e8d6713
Author: Petr Danecek <pd3 at sanger.ac.uk>
Date:   Wed Dec 4 16:47:01 2013 +0000

    faidx: Detect compressed BGZF fasta files and create .gzi index without asking to allow proper functioning of samtools faidx fasta.fa.gz
---
 faidx.c | 2 ++
 1 file changed, 2 insertions(+)

diff --git a/faidx.c b/faidx.c
index 5be4f23..eda8a74 100644
--- a/faidx.c
+++ b/faidx.c
@@ -185,7 +185,9 @@ int fai_build(const char *fn)
 		free(str);
 		return -1;
 	}
+    if ( bgzf->is_compressed ) bgzf_index_build_init(bgzf);
 	fai = fai_build_core(bgzf);
+    if ( bgzf->is_compressed ) bgzf_index_dump(bgzf, fn, ".gzi");
 	bgzf_close(bgzf);
 	fp = fopen(str, "wb");
 	if ( !fp ) {

-- 
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