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locks; strict;
comment	@// @;


1.2
date	2023.08.29.21.49.57;	author bacon;	state Exp;
branches;
next	1.1;
commitid	3t5B44MuRw1jiJCE;

1.1
date	2023.07.31.14.34.18;	author bacon;	state Exp;
branches;
next	;
commitid	qOkQl0Djtm2EOXyE;


desc
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1.2
log
@biology/rna-star: Fix build on Darwin 21.6.0 x86

Remove extern "C" in file build with c++
@
text
@$NetBSD$

# Portability

--- SoloBarcode.cpp.orig	2023-07-23 17:22:42.613062682 +0000
+++ SoloBarcode.cpp
@@@@ -3,6 +3,7 @@@@
 #include "SoloCommon.h"
 #include "SequenceFuns.h"
 #include "ParametersSolo.h"
+#include <cmath>
 
 void wlAddMismatches(uint32 nMM, uint32 cbLen, vector<uintCB> &wl, vector<uintCB> &wlEd1, vector<uint32> &wlInd1);
 
@@@@ -149,4 +150,4 @@@@ void wlAddMismatches(uint32 nMM, uint32 
             ++icb;
         };
     };
-};
\ No newline at end of file
+};
@


1.1
log
@biology/rna-star: Spliced Transcripts Align to a Ref

STAR (Spliced Transcripts Alignment to a Reference) aims to achieve
accurate alignment of high-throughput RNA-seq data.  STAR is based on
a previously undescribed RNA-seq alignment algorithm that uses
sequential maximum mappable seed search in uncompressed suffix arrays
followed by seed clustering and stitching procedure. STAR outperforms
other aligners by a factor of >50 in mapping speed, aligning to the
human genome 550 million 2 x 76 bp paired-end reads per hour on a modest
12-core server, while at the same time improving alignment sensitivity
and precision.
@
text
@@