Commit a5d29756 authored by Andreas Tille's avatar Andreas Tille
Browse files

New upstream version 2.0.689

parent 8bbfb84c
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+40 −0
Original line number Diff line number Diff line
libmaus2 (2.0.689-1) unstable; urgency=medium

  * add isCoding,getStrand and getCDS in GTFData

 -- German Tischler-Höhle <germant@miltenyibiotec.de>  Wed, 20 Nov 2019 14:13:18 +0100

libmaus2 (2.0.688-1) unstable; urgency=medium

  * add get*Info in VCFParser

 -- German Tischler-Höhle <germant@miltenyibiotec.de>  Tue, 19 Nov 2019 13:53:41 +0100

libmaus2 (2.0.687-1) unstable; urgency=medium

  * update default sort block sizes in classes using serialised sorting
  * add StreamGetObject in Makefile
  * change default sort block size in SerialisingSortingBufferedOutputFile
  * add test for SerialisingSortingBufferedOutputFile in testAIO
  * reimplement SerialisingSortingBufferedOutput to use fixed size buffer
  * add verbose mode for SerialisingMergingReadBack
  * add verbose mode for SerialisingSortingBufferedOutputFile
  * add lengthUTF8 in UTF8 class
  * add CharArrayInputStream/CharArrayOutputStream/CountOutputStream/StreamGetObject plus tests
  * add maxdepth field in ExonSubInfo
  * add getStrings method in TabEntry

 -- German Tischler-Höhle <germant@miltenyibiotec.de>  Tue, 12 Nov 2019 17:19:33 +0100

libmaus2 (2.0.686-1) unstable; urgency=medium

  * add include statement for stdexcept in PosixFunctions.cpp

 -- German Tischler-Höhle <germant@miltenyibiotec.de>  Thu, 07 Nov 2019 11:04:53 +0100

libmaus2 (2.0.685-1) unstable; urgency=medium

  * add print method in GTFData/Gene/Transcript/Exon

 -- German Tischler-Höhle <germant@miltenyibiotec.de>  Thu, 07 Nov 2019 10:16:57 +0100

libmaus2 (2.0.684-1) unstable; urgency=medium

  * add reset method in IndexBase
+11 −11
Original line number Diff line number Diff line
@%:@! /bin/sh
@%:@ Guess values for system-dependent variables and create Makefiles.
@%:@ Generated by GNU Autoconf 2.69 for libmaus2 2.0.683.
@%:@ Generated by GNU Autoconf 2.69 for libmaus2 2.0.688.
@%:@
@%:@ Report bugs to <tischler@mpi-cbg.de>.
@%:@ 
@@ -590,8 +590,8 @@ MAKEFLAGS=
# Identity of this package.
PACKAGE_NAME='libmaus2'
PACKAGE_TARNAME='libmaus2'
PACKAGE_VERSION='2.0.683'
PACKAGE_STRING='libmaus2 2.0.683'
PACKAGE_VERSION='2.0.688'
PACKAGE_STRING='libmaus2 2.0.688'
PACKAGE_BUGREPORT='tischler@mpi-cbg.de'
PACKAGE_URL='https://github.com/gt1/libmaus2'
@@ -1568,7 +1568,7 @@ if test "$ac_init_help" = "long"; then
  # Omit some internal or obsolete options to make the list less imposing.
  # This message is too long to be a string in the A/UX 3.1 sh.
  cat <<_ACEOF
\`configure' configures libmaus2 2.0.683 to adapt to many kinds of systems.
\`configure' configures libmaus2 2.0.688 to adapt to many kinds of systems.
Usage: $0 [OPTION]... [VAR=VALUE]...
@@ -1640,7 +1640,7 @@ fi
if test -n "$ac_init_help"; then
  case $ac_init_help in
     short | recursive ) echo "Configuration of libmaus2 2.0.683:";;
     short | recursive ) echo "Configuration of libmaus2 2.0.688:";;
   esac
  cat <<\_ACEOF
@@ -1802,7 +1802,7 @@ fi
test -n "$ac_init_help" && exit $ac_status
if $ac_init_version; then
  cat <<\_ACEOF
libmaus2 configure 2.0.683
libmaus2 configure 2.0.688
generated by GNU Autoconf 2.69
Copyright (C) 2012 Free Software Foundation, Inc.
@@ -2633,7 +2633,7 @@ cat >config.log <<_ACEOF
This file contains any messages produced by compilers while
running configure, to aid debugging if configure makes a mistake.
It was created by libmaus2 $as_me 2.0.683, which was
It was created by libmaus2 $as_me 2.0.688, which was
generated by GNU Autoconf 2.69.  Invocation command line was
  $ $0 $@
@@ -2981,7 +2981,7 @@ ac_link='$CC -o conftest$ac_exeext $CFLAGS $CPPFLAGS $LDFLAGS conftest.$ac_ext $
ac_compiler_gnu=$ac_cv_c_compiler_gnu
LIBRARY_VERSION=2:683:0
LIBRARY_VERSION=2:688:0
{ $as_echo "$as_me:${as_lineno-$LINENO}: Configuring for source in directory ${srcdir}" >&5
$as_echo "$as_me: Configuring for source in directory ${srcdir}" >&6;}
ac_aux_dir=
@@ -12537,7 +12537,7 @@ fi
# Define the identity of the package.
 PACKAGE='libmaus2'
 VERSION='2.0.683'
 VERSION='2.0.688'
cat >>confdefs.h <<_ACEOF
@@ -26171,7 +26171,7 @@ cat >>$CONFIG_STATUS <<\_ACEOF || ac_write_fail=1
# report actual input values of CONFIG_FILES etc. instead of their
# values after options handling.
ac_log="
This file was extended by libmaus2 $as_me 2.0.683, which was
This file was extended by libmaus2 $as_me 2.0.688, which was
generated by GNU Autoconf 2.69.  Invocation command line was
  CONFIG_FILES    = $CONFIG_FILES
@@ -26238,7 +26238,7 @@ _ACEOF
cat >>$CONFIG_STATUS <<_ACEOF || ac_write_fail=1
ac_cs_config="`$as_echo "$ac_configure_args" | sed 's/^ //; s/[\\""\`\$]/\\\\&/g'`"
ac_cs_version="\\
libmaus2 config.status 2.0.683
libmaus2 config.status 2.0.688
configured by $0, generated by GNU Autoconf 2.69,
  with options \\"\$ac_cs_config\\"
+11 −11
Original line number Diff line number Diff line
@%:@! /bin/sh
@%:@ Guess values for system-dependent variables and create Makefiles.
@%:@ Generated by GNU Autoconf 2.69 for libmaus2 2.0.684.
@%:@ Generated by GNU Autoconf 2.69 for libmaus2 2.0.689.
@%:@
@%:@ Report bugs to <tischler@mpi-cbg.de>.
@%:@ 
@@ -590,8 +590,8 @@ MAKEFLAGS=
# Identity of this package.
PACKAGE_NAME='libmaus2'
PACKAGE_TARNAME='libmaus2'
PACKAGE_VERSION='2.0.684'
PACKAGE_STRING='libmaus2 2.0.684'
PACKAGE_VERSION='2.0.689'
PACKAGE_STRING='libmaus2 2.0.689'
PACKAGE_BUGREPORT='tischler@mpi-cbg.de'
PACKAGE_URL='https://github.com/gt1/libmaus2'
@@ -1568,7 +1568,7 @@ if test "$ac_init_help" = "long"; then
  # Omit some internal or obsolete options to make the list less imposing.
  # This message is too long to be a string in the A/UX 3.1 sh.
  cat <<_ACEOF
\`configure' configures libmaus2 2.0.684 to adapt to many kinds of systems.
\`configure' configures libmaus2 2.0.689 to adapt to many kinds of systems.
Usage: $0 [OPTION]... [VAR=VALUE]...
@@ -1640,7 +1640,7 @@ fi
if test -n "$ac_init_help"; then
  case $ac_init_help in
     short | recursive ) echo "Configuration of libmaus2 2.0.684:";;
     short | recursive ) echo "Configuration of libmaus2 2.0.689:";;
   esac
  cat <<\_ACEOF
@@ -1802,7 +1802,7 @@ fi
test -n "$ac_init_help" && exit $ac_status
if $ac_init_version; then
  cat <<\_ACEOF
libmaus2 configure 2.0.684
libmaus2 configure 2.0.689
generated by GNU Autoconf 2.69
Copyright (C) 2012 Free Software Foundation, Inc.
@@ -2633,7 +2633,7 @@ cat >config.log <<_ACEOF
This file contains any messages produced by compilers while
running configure, to aid debugging if configure makes a mistake.
It was created by libmaus2 $as_me 2.0.684, which was
It was created by libmaus2 $as_me 2.0.689, which was
generated by GNU Autoconf 2.69.  Invocation command line was
  $ $0 $@
@@ -2981,7 +2981,7 @@ ac_link='$CC -o conftest$ac_exeext $CFLAGS $CPPFLAGS $LDFLAGS conftest.$ac_ext $
ac_compiler_gnu=$ac_cv_c_compiler_gnu
LIBRARY_VERSION=2:684:0
LIBRARY_VERSION=2:689:0
{ $as_echo "$as_me:${as_lineno-$LINENO}: Configuring for source in directory ${srcdir}" >&5
$as_echo "$as_me: Configuring for source in directory ${srcdir}" >&6;}
ac_aux_dir=
@@ -12537,7 +12537,7 @@ fi
# Define the identity of the package.
 PACKAGE='libmaus2'
 VERSION='2.0.684'
 VERSION='2.0.689'
cat >>confdefs.h <<_ACEOF
@@ -26171,7 +26171,7 @@ cat >>$CONFIG_STATUS <<\_ACEOF || ac_write_fail=1
# report actual input values of CONFIG_FILES etc. instead of their
# values after options handling.
ac_log="
This file was extended by libmaus2 $as_me 2.0.684, which was
This file was extended by libmaus2 $as_me 2.0.689, which was
generated by GNU Autoconf 2.69.  Invocation command line was
  CONFIG_FILES    = $CONFIG_FILES
@@ -26238,7 +26238,7 @@ _ACEOF
cat >>$CONFIG_STATUS <<_ACEOF || ac_write_fail=1
ac_cs_config="`$as_echo "$ac_configure_args" | sed 's/^ //; s/[\\""\`\$]/\\\\&/g'`"
ac_cs_version="\\
libmaus2 config.status 2.0.684
libmaus2 config.status 2.0.689
configured by $0, generated by GNU Autoconf 2.69,
  with options \\"\$ac_cs_config\\"
+11 −11
Original line number Diff line number Diff line
@%:@! /bin/sh
@%:@ Guess values for system-dependent variables and create Makefiles.
@%:@ Generated by GNU Autoconf 2.69 for libmaus2 2.0.684.
@%:@ Generated by GNU Autoconf 2.69 for libmaus2 2.0.689.
@%:@
@%:@ Report bugs to <tischler@mpi-cbg.de>.
@%:@ 
@@ -590,8 +590,8 @@ MAKEFLAGS=
# Identity of this package.
PACKAGE_NAME='libmaus2'
PACKAGE_TARNAME='libmaus2'
PACKAGE_VERSION='2.0.684'
PACKAGE_STRING='libmaus2 2.0.684'
PACKAGE_VERSION='2.0.689'
PACKAGE_STRING='libmaus2 2.0.689'
PACKAGE_BUGREPORT='tischler@mpi-cbg.de'
PACKAGE_URL='https://github.com/gt1/libmaus2'
@@ -1568,7 +1568,7 @@ if test "$ac_init_help" = "long"; then
  # Omit some internal or obsolete options to make the list less imposing.
  # This message is too long to be a string in the A/UX 3.1 sh.
  cat <<_ACEOF
\`configure' configures libmaus2 2.0.684 to adapt to many kinds of systems.
\`configure' configures libmaus2 2.0.689 to adapt to many kinds of systems.
Usage: $0 [OPTION]... [VAR=VALUE]...
@@ -1640,7 +1640,7 @@ fi
if test -n "$ac_init_help"; then
  case $ac_init_help in
     short | recursive ) echo "Configuration of libmaus2 2.0.684:";;
     short | recursive ) echo "Configuration of libmaus2 2.0.689:";;
   esac
  cat <<\_ACEOF
@@ -1802,7 +1802,7 @@ fi
test -n "$ac_init_help" && exit $ac_status
if $ac_init_version; then
  cat <<\_ACEOF
libmaus2 configure 2.0.684
libmaus2 configure 2.0.689
generated by GNU Autoconf 2.69
Copyright (C) 2012 Free Software Foundation, Inc.
@@ -2633,7 +2633,7 @@ cat >config.log <<_ACEOF
This file contains any messages produced by compilers while
running configure, to aid debugging if configure makes a mistake.
It was created by libmaus2 $as_me 2.0.684, which was
It was created by libmaus2 $as_me 2.0.689, which was
generated by GNU Autoconf 2.69.  Invocation command line was
  $ $0 $@
@@ -2981,7 +2981,7 @@ ac_link='$CC -o conftest$ac_exeext $CFLAGS $CPPFLAGS $LDFLAGS conftest.$ac_ext $
ac_compiler_gnu=$ac_cv_c_compiler_gnu
LIBRARY_VERSION=2:684:0
LIBRARY_VERSION=2:689:0
{ $as_echo "$as_me:${as_lineno-$LINENO}: Configuring for source in directory ${srcdir}" >&5
$as_echo "$as_me: Configuring for source in directory ${srcdir}" >&6;}
ac_aux_dir=
@@ -12537,7 +12537,7 @@ fi
# Define the identity of the package.
 PACKAGE='libmaus2'
 VERSION='2.0.684'
 VERSION='2.0.689'
cat >>confdefs.h <<_ACEOF
@@ -26171,7 +26171,7 @@ cat >>$CONFIG_STATUS <<\_ACEOF || ac_write_fail=1
# report actual input values of CONFIG_FILES etc. instead of their
# values after options handling.
ac_log="
This file was extended by libmaus2 $as_me 2.0.684, which was
This file was extended by libmaus2 $as_me 2.0.689, which was
generated by GNU Autoconf 2.69.  Invocation command line was
  CONFIG_FILES    = $CONFIG_FILES
@@ -26238,7 +26238,7 @@ _ACEOF
cat >>$CONFIG_STATUS <<_ACEOF || ac_write_fail=1
ac_cs_config="`$as_echo "$ac_configure_args" | sed 's/^ //; s/[\\""\`\$]/\\\\&/g'`"
ac_cs_version="\\
libmaus2 config.status 2.0.684
libmaus2 config.status 2.0.689
configured by $0, generated by GNU Autoconf 2.69,
  with options \\"\$ac_cs_config\\"
+392 −392

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