[MacPorts] #38969: cufflinks @0.9.3 - build failure

[MacPorts]

#38969: cufflinks @0.9.3 - build failure
------------------------+------------------------
  Reporter:  graceqy@…  |      Owner:  ryandesign
      Type:  defect     |     Status:  assigned
  Priority:  Normal     |  Milestone:
 Component:  ports      |    Version:  2.1.3
Resolution:             |   Keywords:
      Port:  cufflinks  |
------------------------+------------------------

Comment (by barracuda156):

 Replying to [comment:6 chrstphrchvz]:
 > cufflinks was updated to 2.2.1 in 2018. Is this ticket still relevant,
 or can it be closed?

 It fails to configure:
 {{{
 --->  Extracting cufflinks-2.2.1.tar.gz
 Executing:  cd
 "/opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_macports_release_tarballs_ports_science_cufflinks/cufflinks/work"
 && /usr/bin/gzip -dc
 '/opt/local/var/macports/distfiles/cufflinks/cufflinks-2.2.1.tar.gz' |
 /usr/bin/gnutar --no-same-owner -xf -
 --->  Applying patches to cufflinks
 --->  Applying boost.patch
 Executing:  cd
 "/opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_macports_release_tarballs_ports_science_cufflinks/cufflinks/work/cufflinks-2.2.1"
 && /usr/bin/patch -t -N -p0 <
 '/opt/local/var/macports/sources/rsync.macports.org/macports/release/tarballs/ports/science/cufflinks/files/boost.patch'
 patching file src/biascorrection.h
 --->  Configuring cufflinks
 Executing:  cd
 "/opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_macports_release_tarballs_ports_science_cufflinks/cufflinks/work/cufflinks-2.2.1"
 && ./configure --prefix=/opt/local --with-bam=/opt/local --with-
 boost=/opt/local/libexec/boost/1.71 --with-eigen=/opt/local --with-
 zlib=/opt/local
 checking for a BSD-compatible install... /usr/bin/install -c
 checking whether build environment is sane... yes
 checking for gawk... gawk
 checking whether make sets $(MAKE)... yes
 checking for gawk... (cached) gawk
 checking for C++ compiler default output file name... a.out
 checking whether the C++ compiler works... yes
 checking whether we are cross compiling... no
 checking for suffix of executables...
 checking for suffix of object files... o
 checking whether we are using the GNU C++ compiler... yes
 checking whether ccache /usr/bin/g++-4.2 accepts -g... yes
 checking for style of include used by make... GNU
 checking dependency style of ccache /usr/bin/g++-4.2... gcc3
 checking for gcc... ccache /usr/bin/gcc-4.2
 checking whether we are using the GNU C compiler... yes
 checking whether ccache /usr/bin/gcc-4.2 accepts -g... yes
 checking for ccache /usr/bin/gcc-4.2 option to accept ISO C89... none
 needed
 checking dependency style of ccache /usr/bin/gcc-4.2... gcc3
 checking whether make sets $(MAKE)... (cached) yes
 checking for ranlib... ranlib
 checking for a BSD-compatible install... /usr/bin/install -c
 checking for a Python interpreter with version >= 2.4... python
 checking for python... /usr/bin/python
 checking for python version... 2.5
 checking for python platform... darwin
 checking for python script directory... ${prefix}/lib/python2.5/site-
 packages
 checking for python extension module directory...
 ${exec_prefix}/lib/python2.5/site-packages
 checking for boostlib >= 1.47.0... yes
 checking for bamlib... configure: error: We could not detect the bam
 libraries (version  or higher). If you have a staged bam library (still
 not installed) please specify $BAM_ROOT in your environment and do not
 give a PATH to --with-bam option.  If you are sure you have bam installed,
 then check your version number looking in <bam/version.hpp>. See
 http://randspringer.de/bam for more documentation.
 Command failed:  cd
 "/opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_macports_release_tarballs_ports_science_cufflinks/cufflinks/work/cufflinks-2.2.1"
 && ./configure --prefix=/opt/local --with-bam=/opt/local --with-
 boost=/opt/local/libexec/boost/1.71 --with-eigen=/opt/local --with-
 zlib=/opt/local
 Exit code: 1
 }}}

-- 
Ticket URL: <https://trac.macports.org/ticket/38969#comment:9>
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