Hi All, I have tried to run "python3 firedrake-install --install gusto" and almost succeeded. I've attached the log file... I had to interrupt a previous install but I just removed the directory and started again - not sure if that's the problem. Thanks! Jemma
It looks like a failure trying to configure gtest in libspatialindex, which should be skipped as per https://github.com/firedrakeproject/firedrake/blob/master/scripts/firedrake-... <https://github.com/firedrakeproject/firedrake/blob/master/scripts/firedrake-install#L717>
On 28 Jul 2017, at 22:39, Shipton, Jemma <j.shipton@imperial.ac.uk> wrote:
Hi All,
I have tried to run "python3 firedrake-install --install gusto" and almost succeeded. I've attached the log file...
I had to interrupt a previous install but I just removed the directory and started again - not sure if that's the problem.
Thanks!
Jemma <firedrake-install.log>_______________________________________________ firedrake mailing list firedrake@imperial.ac.uk <mailto:firedrake@imperial.ac.uk> https://mailman.ic.ac.uk/mailman/listinfo/firedrake <https://mailman.ic.ac.uk/mailman/listinfo/firedrake>
Any idea why it isn't skipping it? Did I do something wrong? What shall I try next? Thanks! Jemma ________________________________ From: firedrake-bounces@imperial.ac.uk <firedrake-bounces@imperial.ac.uk> on behalf of Miklós Homolya <m.homolya14@imperial.ac.uk> Sent: 28 July 2017 23:17:43 To: firedrake Subject: Re: [firedrake] broken install using python3 It looks like a failure trying to configure gtest in libspatialindex, which should be skipped as per https://github.com/firedrakeproject/firedrake/blob/master/scripts/firedrake-... On 28 Jul 2017, at 22:39, Shipton, Jemma <j.shipton@imperial.ac.uk<mailto:j.shipton@imperial.ac.uk>> wrote: Hi All, I have tried to run "python3 firedrake-install --install gusto" and almost succeeded. I've attached the log file... I had to interrupt a previous install but I just removed the directory and started again - not sure if that's the problem. Thanks! Jemma <firedrake-install.log>_______________________________________________ firedrake mailing list firedrake@imperial.ac.uk<mailto:firedrake@imperial.ac.uk> https://mailman.ic.ac.uk/mailman/listinfo/firedrake
I also have an issue with libspatialindex. Any ideas? On 31 Jul 2017, at 10:10, Shipton, Jemma <j.shipton@imperial.ac.uk<mailto:j.shipton@imperial.ac.uk>> wrote: Any idea why it isn't skipping it? Did I do something wrong? What shall I try next? Thanks! Jemma ________________________________ From: firedrake-bounces@imperial.ac.uk<mailto:firedrake-bounces@imperial.ac.uk> <firedrake-bounces@imperial.ac.uk<mailto:firedrake-bounces@imperial.ac.uk>> on behalf of Miklós Homolya <m.homolya14@imperial.ac.uk<mailto:m.homolya14@imperial.ac.uk>> Sent: 28 July 2017 23:17:43 To: firedrake Subject: Re: [firedrake] broken install using python3 It looks like a failure trying to configure gtest in libspatialindex, which should be skipped as per https://github.com/firedrakeproject/firedrake/blob/master/scripts/firedrake-... On 28 Jul 2017, at 22:39, Shipton, Jemma <j.shipton@imperial.ac.uk<mailto:j.shipton@imperial.ac.uk>> wrote: Hi All, I have tried to run "python3 firedrake-install --install gusto" and almost succeeded. I've attached the log file... I had to interrupt a previous install but I just removed the directory and started again - not sure if that's the problem. Thanks! Jemma <firedrake-install.log>_______________________________________________ firedrake mailing list firedrake@imperial.ac.uk<mailto:firedrake@imperial.ac.uk> https://mailman.ic.ac.uk/mailman/listinfo/firedrake _______________________________________________ firedrake mailing list firedrake@imperial.ac.uk<mailto:firedrake@imperial.ac.uk> https://mailman.ic.ac.uk/mailman/listinfo/firedrake
On 31 Jul 2017, at 14:07, Anna Kalogirou <A.Kalogirou@leeds.ac.uk> wrote:
I also have an issue with libspatialindex. Any ideas?
2017-07-31 13:49:27,832 DEBUG ssh: Could not resolve hostname github.com: nodename nor servname provided, or not known fatal: Could not read from remote repository. Please make sure you have the correct access rights and the repository exists. 2017-07-31 13:49:27,833 WARNING Failed to clone libspatialindex using ssh, falling back to https. 2017-07-31 13:49:57,912 DEBUG fatal: unable to access 'https://github.com/firedrakeproject/libspatialindex.git/': Could not resolve host: github.com 2017-07-31 13:49:57,913 ERROR Failed to clone libspatialindex branch master. 2017-07-31 13:49:57,926 INFO It looks like your internet connection or DNS fell over. Cloning the libspatialindex repository failed. Lawrence
Thanks Lawrence, the second installation attempt worked. Best, Anna.
On 31 Jul 2017, at 15:17, Lawrence Mitchell <lawrence.mitchell@imperial.ac.uk> wrote:
On 31 Jul 2017, at 14:07, Anna Kalogirou <A.Kalogirou@leeds.ac.uk> wrote:
I also have an issue with libspatialindex. Any ideas?
2017-07-31 13:49:27,832 DEBUG ssh: Could not resolve hostname github.com: nodename nor servname provided, or not known fatal: Could not read from remote repository.
Please make sure you have the correct access rights and the repository exists.
2017-07-31 13:49:27,833 WARNING Failed to clone libspatialindex using ssh, falling back to https. 2017-07-31 13:49:57,912 DEBUG fatal: unable to access 'https://github.com/firedrakeproject/libspatialindex.git/': Could not resolve host: github.com
2017-07-31 13:49:57,913 ERROR Failed to clone libspatialindex branch master. 2017-07-31 13:49:57,926 INFO
It looks like your internet connection or DNS fell over. Cloning the libspatialindex repository failed.
Lawrence _______________________________________________ firedrake mailing list firedrake@imperial.ac.uk https://mailman.ic.ac.uk/mailman/listinfo/firedrake
Dear all, I have been trying to install firedrake on my other laptop but I get errors at the petsc stage. Install log is attached. Thank you, Anna.
On 31 Jul 2017, at 16:17, Anna Kalogirou <a.kalogirou@leeds.ac.uk> wrote:
Thanks Lawrence, the second installation attempt worked.
Best, Anna.
On 31 Jul 2017, at 15:17, Lawrence Mitchell <lawrence.mitchell@imperial.ac.uk> wrote:
On 31 Jul 2017, at 14:07, Anna Kalogirou <A.Kalogirou@leeds.ac.uk> wrote:
I also have an issue with libspatialindex. Any ideas?
2017-07-31 13:49:27,832 DEBUG ssh: Could not resolve hostname github.com: nodename nor servname provided, or not known fatal: Could not read from remote repository.
Please make sure you have the correct access rights and the repository exists.
2017-07-31 13:49:27,833 WARNING Failed to clone libspatialindex using ssh, falling back to https. 2017-07-31 13:49:57,912 DEBUG fatal: unable to access 'https://github.com/firedrakeproject/libspatialindex.git/': Could not resolve host: github.com
2017-07-31 13:49:57,913 ERROR Failed to clone libspatialindex branch master. 2017-07-31 13:49:57,926 INFO
It looks like your internet connection or DNS fell over. Cloning the libspatialindex repository failed.
Lawrence _______________________________________________ firedrake mailing list firedrake@imperial.ac.uk https://mailman.ic.ac.uk/mailman/listinfo/firedrake
_______________________________________________ firedrake mailing list firedrake@imperial.ac.uk https://mailman.ic.ac.uk/mailman/listinfo/firedrake
Hello Anna, Apparently you MPI C compiler is not working. Are your brew packages up-to-date, and is the output of "brew doctor" clean? Regards, Miklos On 08/08/17 22:39, Anna Kalogirou wrote:
Dear all,
I have been trying to install firedrake on my other laptop but I get errors at the petsc stage. Install log is attached.
Thank you,
Anna.
On 31 Jul 2017, at 16:17, Anna Kalogirou <a.kalogirou@leeds.ac.uk> wrote:
Thanks Lawrence, the second installation attempt worked.
Best, Anna.
On 31 Jul 2017, at 15:17, Lawrence Mitchell <lawrence.mitchell@imperial.ac.uk> wrote:
On 31 Jul 2017, at 14:07, Anna Kalogirou <A.Kalogirou@leeds.ac.uk> wrote:
I also have an issue with libspatialindex. Any ideas?
2017-07-31 13:49:27,832 DEBUG ssh: Could not resolve hostname github.com: nodename nor servname provided, or not known fatal: Could not read from remote repository.
Please make sure you have the correct access rights and the repository exists.
2017-07-31 13:49:27,833 WARNING Failed to clone libspatialindex using ssh, falling back to https. 2017-07-31 13:49:57,912 DEBUG fatal: unable to access 'https://github.com/firedrakeproject/libspatialindex.git/': Could not resolve host: github.com
2017-07-31 13:49:57,913 ERROR Failed to clone libspatialindex branch master. 2017-07-31 13:49:57,926 INFO
It looks like your internet connection or DNS fell over. Cloning the libspatialindex repository failed.
Lawrence _______________________________________________ firedrake mailing list firedrake@imperial.ac.uk https://mailman.ic.ac.uk/mailman/listinfo/firedrake
_______________________________________________ firedrake mailing list firedrake@imperial.ac.uk https://mailman.ic.ac.uk/mailman/listinfo/firedrake
_______________________________________________ firedrake mailing list firedrake@imperial.ac.uk https://mailman.ic.ac.uk/mailman/listinfo/firedrake
Hi Miklos, I did run brew doctor already, fixed all the warnings and attempted the installation again. Same error. How do I fix the MPI C compiler then? Thanks, Anna. On 9 Aug 2017, at 09:58, Miklós Homolya <m.homolya14@imperial.ac.uk<mailto:m.homolya14@imperial.ac.uk>> wrote: Hello Anna, Apparently you MPI C compiler is not working. Are your brew packages up-to-date, and is the output of "brew doctor" clean? Regards, Miklos On 08/08/17 22:39, Anna Kalogirou wrote: Dear all, I have been trying to install firedrake on my other laptop but I get errors at the petsc stage. Install log is attached. Thank you, Anna.
On 31 Jul 2017, at 16:17, Anna Kalogirou <a.kalogirou@leeds.ac.uk><mailto:a.kalogirou@leeds.ac.uk> wrote:
Thanks Lawrence, the second installation attempt worked.
Best, Anna.
On 31 Jul 2017, at 15:17, Lawrence Mitchell <lawrence.mitchell@imperial.ac.uk><mailto:lawrence.mitchell@imperial.ac.uk> wrote:
On 31 Jul 2017, at 14:07, Anna Kalogirou <A.Kalogirou@leeds.ac.uk><mailto:A.Kalogirou@leeds.ac.uk> wrote:
I also have an issue with libspatialindex. Any ideas?
2017-07-31 13:49:27,832 DEBUG ssh: Could not resolve hostname github.com<http://github.com>: nodename nor servname provided, or not known fatal: Could not read from remote repository.
Please make sure you have the correct access rights and the repository exists.
2017-07-31 13:49:27,833 WARNING Failed to clone libspatialindex using ssh, falling back to https. 2017-07-31 13:49:57,912 DEBUG fatal: unable to access 'https://github.com/firedrakeproject/libspatialindex.git/': Could not resolve host: github.com<http://github.com>
2017-07-31 13:49:57,913 ERROR Failed to clone libspatialindex branch master. 2017-07-31 13:49:57,926 INFO
It looks like your internet connection or DNS fell over. Cloning the libspatialindex repository failed.
Lawrence _______________________________________________ firedrake mailing list firedrake@imperial.ac.uk<mailto:firedrake@imperial.ac.uk> https://mailman.ic.ac.uk/mailman/listinfo/firedrake
_______________________________________________ firedrake mailing list firedrake@imperial.ac.uk<mailto:firedrake@imperial.ac.uk> https://mailman.ic.ac.uk/mailman/listinfo/firedrake
_______________________________________________ firedrake mailing list firedrake@imperial.ac.uk<mailto:firedrake@imperial.ac.uk> https://mailman.ic.ac.uk/mailman/listinfo/firedrake _______________________________________________ firedrake mailing list firedrake@imperial.ac.uk<mailto:firedrake@imperial.ac.uk> https://mailman.ic.ac.uk/mailman/listinfo/firedrake
Can you try to compile and run this program and see what happens? #include <stdio.h> #include <mpi.h> main(int argc, char **argv) { int node; MPI_Init(&argc,&argv); MPI_Comm_rank(MPI_COMM_WORLD, &node); printf("Hello World from Node %d\n",node); MPI_Finalize(); } For example, if the above code is saved as mpi_hello.c, then run $ mpicc mpi_hello.c -o mpi_hello $ ./mpi_hello $ mpirun -n 3 ./mpi_hello On 09/08/17 10:01, Anna Kalogirou wrote:
Hi Miklos,
I did run brew doctor already, fixed all the warnings and attempted the installation again. Same error. How do I fix the MPI C compiler then?
Thanks,
Anna.
On 9 Aug 2017, at 09:58, Miklós Homolya <m.homolya14@imperial.ac.uk <mailto:m.homolya14@imperial.ac.uk>> wrote:
Hello Anna,
Apparently you MPI C compiler is not working. Are your brew packages up-to-date, and is the output of "brew doctor" clean?
Regards,
Miklos
On 08/08/17 22:39, Anna Kalogirou wrote:
Dear all,
I have been trying to install firedrake on my other laptop but I get errors at the petsc stage. Install log is attached.
Thank you,
Anna.
On 31 Jul 2017, at 16:17, Anna Kalogirou <a.kalogirou@leeds.ac.uk> wrote:
Thanks Lawrence, the second installation attempt worked.
Best, Anna.
On 31 Jul 2017, at 15:17, Lawrence Mitchell <lawrence.mitchell@imperial.ac.uk> wrote:
On 31 Jul 2017, at 14:07, Anna Kalogirou <A.Kalogirou@leeds.ac.uk> wrote:
I also have an issue with libspatialindex. Any ideas?
2017-07-31 13:49:27,832 DEBUG ssh: Could not resolve hostname github.com <http://github.com>: nodename nor servname provided, or not known fatal: Could not read from remote repository.
Please make sure you have the correct access rights and the repository exists.
2017-07-31 13:49:27,833 WARNING Failed to clone libspatialindex using ssh, falling back to https. 2017-07-31 13:49:57,912 DEBUG fatal: unable to access 'https://github.com/firedrakeproject/libspatialindex.git/': Could not resolve host: github.com <http://github.com>
2017-07-31 13:49:57,913 ERROR Failed to clone libspatialindex branch master. 2017-07-31 13:49:57,926 INFO
It looks like your internet connection or DNS fell over. Cloning the libspatialindex repository failed.
Lawrence _______________________________________________ firedrake mailing list firedrake@imperial.ac.uk https://mailman.ic.ac.uk/mailman/listinfo/firedrake
_______________________________________________ firedrake mailing list firedrake@imperial.ac.uk https://mailman.ic.ac.uk/mailman/listinfo/firedrake
_______________________________________________ firedrake mailing list firedrake@imperial.ac.uk https://mailman.ic.ac.uk/mailman/listinfo/firedrake
_______________________________________________ firedrake mailing list firedrake@imperial.ac.uk <mailto:firedrake@imperial.ac.uk> https://mailman.ic.ac.uk/mailman/listinfo/firedrake
_______________________________________________ firedrake mailing list firedrake@imperial.ac.uk https://mailman.ic.ac.uk/mailman/listinfo/firedrake
On 28 Jul 2017, at 22:39, Shipton, Jemma <j.shipton@imperial.ac.uk> wrote:
Hi All,
I have tried to run "python3 firedrake-install --install gusto" and almost succeeded. I've attached the log file...
I had to interrupt a previous install but I just removed the directory and started again - not sure if that's the problem.
The error might have been related to this: /usr/local/bin/glibtoolize: line 861: /usr/local/Library/ENV/4.3/sed: No such file or directory Can you try: brew update brew uninstall libtool brew install libtool Please redownload the firedrake-install script (I added a bit more debugging output) and then run again. Thanks! Lawrence
That works - thanks Lawrence! ________________________________ From: firedrake-bounces@imperial.ac.uk <firedrake-bounces@imperial.ac.uk> on behalf of Lawrence Mitchell <lawrence.mitchell@imperial.ac.uk> Sent: 31 July 2017 15:29:57 To: firedrake Subject: Re: [firedrake] broken install using python3
On 28 Jul 2017, at 22:39, Shipton, Jemma <j.shipton@imperial.ac.uk> wrote:
Hi All,
I have tried to run "python3 firedrake-install --install gusto" and almost succeeded. I've attached the log file...
I had to interrupt a previous install but I just removed the directory and started again - not sure if that's the problem.
The error might have been related to this: /usr/local/bin/glibtoolize: line 861: /usr/local/Library/ENV/4.3/sed: No such file or directory Can you try: brew update brew uninstall libtool brew install libtool Please redownload the firedrake-install script (I added a bit more debugging output) and then run again. Thanks! Lawrence _______________________________________________ firedrake mailing list firedrake@imperial.ac.uk https://mailman.ic.ac.uk/mailman/listinfo/firedrake
participants (4)
-
Anna Kalogirou
-
Lawrence Mitchell
-
Miklós Homolya
-
Shipton, Jemma