Changeset 2883

Timestamp:

Dec 3, 2012, 1:48:51 PM (10 years ago)

Author:

Peter

Message:

New classes to wrap around functionality provided by samtools. refs #729

Location:

trunk/yat/omic

Files:

• BamFile.cc (added)
• BamFile.h (added)
• BamHeader.cc (added)
• BamHeader.h (added)
• BamRead.cc (added)
• BamRead.h (added)
• BamReadIterator.cc (added)
• BamReadIterator.h (added)
• BamWriteIterator.cc (added)
• BamWriteIterator.h (added)
• Makefile.am (modified) (2 diffs)

trunk/yat/omic/Makefile.am

@@ -20 +20 @@
 # along with yat. If not, see <http://www.gnu.org/licenses/>.
 
+if HAVE_SAMTOOLS
+yat_libyat_la_SOURCES += yat/omic/BamFile.cc
+yat_libyat_la_SOURCES += yat/omic/BamHeader.cc
+yat_libyat_la_SOURCES += yat/omic/BamRead.cc
+yat_libyat_la_SOURCES += yat/omic/BamReadIterator.cc
+yat_libyat_la_SOURCES += yat/omic/BamWriteIterator.cc
+endif
 yat_libyat_la_SOURCES += yat/omic/Codon.cc
 yat_libyat_la_SOURCES += yat/omic/DNA.cc
@@ -27 +34 @@
 yat_libyat_la_SOURCES += yat/omic/GFF3.cc
 
+if HAVE_SAMTOOLS
+nobase_include_HEADERS += $(srcdir)/yat/omic/BamFile.h
+nobase_include_HEADERS += $(srcdir)/yat/omic/BamHeader.h
+nobase_include_HEADERS += $(srcdir)/yat/omic/BamRead.h
+nobase_include_HEADERS += $(srcdir)/yat/omic/BamReadIterator.h
+nobase_include_HEADERS += $(srcdir)/yat/omic/BamWriteIterator.h
+endif
 nobase_include_HEADERS += $(srcdir)/yat/omic/Codon.h
 nobase_include_HEADERS += $(srcdir)/yat/omic/DNA.h