Failure during compilation with alternate build of GCC

Hdf-forum archives
1

Hi,

I have some fortran programs that would not compile in old versions of
gfortran. I have to run multiple instances of this program and am using
another system (a cluster system) which has centos5 with gcc-4.1 !!

Therefore I had to build new version of gcc; I built both gcc-4.8.3 and
gcc-4.9.2 in my home folder. Before compiling hdf5 libraries I set these
parameters:

PATH=<GCCPATH>:$PATH
LD_LIBRARY_PATH=<GCCLIB>
LD_RUN_PATH=<GCCLIB>
LDFLAGS=<GCCLIB>
CPPFLAGS=<GCCINCLUDE>

then configured as:

./configure --prefix=$HOME/HDF5 --enable-fortran

During make I get this error:

/usr/lib/../lib64/crt1.o: In function `_start':
(.text+0x20): undefined reference to `main'
collect2: error: ld returned 1 exit status

This happens with both versions of gcc but not with the versions installed
in the standard location. General searching let me know that this error is
associated with the absence of a main() and in such cases -c flag has to be
passed (all examples of this error were people's personal scripts and not
libraries). Please let me know if I am missing something.

Upgrading the system OS is not a choice as of now.

Bharat Ravi Iyengar

···

____________________________________

Department of Chemical Engineering
Indian Institute of Technology Bombay

Functional Genomics Unit
Institute of Genomics & Integrative Biology, Delhi

Chemical Engineering & Process Development Division
National Chemical Laboratory, Pune

Tel: +91-9711091770, +91-7030464363

2

Hello,

Information you sent is not enough to troubleshoot the error. Could you please run

./configure —enable-fortran —disable-silent-rules —prefix=/….

and post the output of the configure command (above) and the output of make?

Thank you!

Elena

···

~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
Elena Pourmal The HDF Group http://hdfgroup.org
1800 So. Oak St., Suite 203, Champaign IL 61820
217.531.6112
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~

On May 26, 2015, at 1:11 PM, Bharat Ravi Iyengar <bharatravi.654@gmail.com<mailto:bharatravi.654@gmail.com>> wrote:

Hi,

I have some fortran programs that would not compile in old versions of gfortran. I have to run multiple instances of this program and am using another system (a cluster system) which has centos5 with gcc-4.1 !!

Therefore I had to build new version of gcc; I built both gcc-4.8.3 and gcc-4.9.2 in my home folder. Before compiling hdf5 libraries I set these parameters:

PATH=<GCCPATH>:$PATH
LD_LIBRARY_PATH=<GCCLIB>
LD_RUN_PATH=<GCCLIB>
LDFLAGS=<GCCLIB>
CPPFLAGS=<GCCINCLUDE>

then configured as:

./configure --prefix=$HOME/HDF5 --enable-fortran

During make I get this error:

/usr/lib/../lib64/crt1.o: In function `_start':
(.text+0x20): undefined reference to `main'
collect2: error: ld returned 1 exit status

This happens with both versions of gcc but not with the versions installed in the standard location. General searching let me know that this error is associated with the absence of a main() and in such cases -c flag has to be passed (all examples of this error were people's personal scripts and not libraries). Please let me know if I am missing something.

Upgrading the system OS is not a choice as of now.

Bharat Ravi Iyengar
____________________________________

Department of Chemical Engineering
Indian Institute of Technology Bombay

Functional Genomics Unit
Institute of Genomics & Integrative Biology, Delhi

Chemical Engineering & Process Development Division
National Chemical Laboratory, Pune

Tel: +91-9711091770, +91-7030464363

_______________________________________________
Hdf-forum is for HDF software users discussion.
Hdf-forum@lists.hdfgroup.org<mailto:Hdf-forum@lists.hdfgroup.org>
http://lists.hdfgroup.org/mailman/listinfo/hdf-forum_lists.hdfgroup.org
Twitter: https://twitter.com/hdf5

3

Thank you Elena,

I had a doubt that this is because of mixing up of compiler libraries.
I found that somehow LDFLAGS and CPPFLAGS were not set in the *Makefile*,
even though I set them as mentioned in the INSTALL readme file:

LDFLAGS=-L<GCCLIB>
CPPFLAGS=-I<GCCINCLUDE>

So I added LDFLAGS and CPPFLAGS in the Makefile post configure and HDF5 is
compiling with both versions of gcc.

Thanks again.

Bharat Ravi Iyengar

···

____________________________________

Department of Chemical Engineering
Indian Institute of Technology Bombay

Functional Genomics Unit
Institute of Genomics & Integrative Biology, Delhi

Chemical Engineering & Process Development Division
National Chemical Laboratory, Pune

Tel: +91-9711091770, +91-7030464363

On Wed, May 27, 2015 at 6:18 PM, Elena Pourmal <epourmal@hdfgroup.org> wrote:

Hello,

Information you sent is not enough to troubleshoot the error. Could you
please run

./configure —enable-fortran —disable-silent-rules —prefix=/….

and post the output of the configure command (above) and the output of
make?

Thank you!

Elena
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
Elena Pourmal The HDF Group http://hdfgroup.org
1800 So. Oak St., Suite 203, Champaign IL 61820
217.531.6112
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~

On May 26, 2015, at 1:11 PM, Bharat Ravi Iyengar < > bharatravi.654@gmail.com> wrote:

     Hi,

I have some fortran programs that would not compile in old versions of
gfortran. I have to run multiple instances of this program and am using
another system (a cluster system) which has centos5 with gcc-4.1 !!

Therefore I had to build new version of gcc; I built both gcc-4.8.3 and
gcc-4.9.2 in my home folder. Before compiling hdf5 libraries I set these
parameters:

PATH=<GCCPATH>:$PATH
LD_LIBRARY_PATH=<GCCLIB>
LD_RUN_PATH=<GCCLIB>
LDFLAGS=<GCCLIB>
CPPFLAGS=<GCCINCLUDE>

then configured as:

./configure --prefix=$HOME/HDF5 --enable-fortran

During make I get this error:

/usr/lib/../lib64/crt1.o: In function `_start':
(.text+0x20): undefined reference to `main'
collect2: error: ld returned 1 exit status

This happens with both versions of gcc but not with the versions installed
in the standard location. General searching let me know that this error is
associated with the absence of a main() and in such cases -c flag has to be
passed (all examples of this error were people's personal scripts and not
libraries). Please let me know if I am missing something.

Upgrading the system OS is not a choice as of now.

Bharat Ravi Iyengar
____________________________________

Department of Chemical Engineering
Indian Institute of Technology Bombay

Functional Genomics Unit
Institute of Genomics & Integrative Biology, Delhi

Chemical Engineering & Process Development Division
National Chemical Laboratory, Pune

Tel: +91-9711091770, +91-7030464363

   _______________________________________________
Hdf-forum is for HDF software users discussion.
Hdf-forum@lists.hdfgroup.org
http://lists.hdfgroup.org/mailman/listinfo/hdf-forum_lists.hdfgroup.org
Twitter: https://twitter.com/hdf5

_______________________________________________
Hdf-forum is for HDF software users discussion.
Hdf-forum@lists.hdfgroup.org
http://lists.hdfgroup.org/mailman/listinfo/hdf-forum_lists.hdfgroup.org
Twitter: https://twitter.com/hdf5