Re: [gmx-users] Installing Extended Genbox
I would generally not try to add it to an existing source repository. Instead, follow one of the suggestions in http://www.gromacs.org/Developer_Zone/Git/Gerrit#How_do_I_get_a_copy_of_my_commit_for_which_someone_else_has_uploaded_a_patch.3f to check out that version. Mark On Tue, Oct 1, 2013 at 6:24 AM, Tegar Nurwahyu Wijaya tnurwahyuwij...@gmail.com wrote: Dear all, I want to install Extended Genbox from gerrit. https://gerrit.gromacs.org/#/c/1175/ How can I put this code into my existing gromacs installation? Thanks. Regards, Tegar -- gmx-users mailing listgmx-users@gromacs.org http://lists.gromacs.org/mailman/listinfo/gmx-users * Please search the archive at http://www.gromacs.org/Support/Mailing_Lists/Search before posting! * Please don't post (un)subscribe requests to the list. Use the www interface or send it to gmx-users-requ...@gromacs.org. * Can't post? Read http://www.gromacs.org/Support/Mailing_Lists -- gmx-users mailing listgmx-users@gromacs.org http://lists.gromacs.org/mailman/listinfo/gmx-users * Please search the archive at http://www.gromacs.org/Support/Mailing_Lists/Search before posting! * Please don't post (un)subscribe requests to the list. Use the www interface or send it to gmx-users-requ...@gromacs.org. * Can't post? Read http://www.gromacs.org/Support/Mailing_Lists
Re: [gmx-users] Installing Extended Genbox
Hi Mark, Thank you for your reply. Actually I am not trying to add it to the repository. I have gromacs 4.6 installed in my computer. When I was trying using genbox, an error occurred caused by memory lacking. After searched this mailing list, I got that extended genbox code that can fix my problem. But I don't know how to put that code into my installed gromacs 4.6. Do you or anybody know how to do that? Regards, Tegar On Tue, Oct 1, 2013 at 10:12 AM, Mark Abraham mark.j.abra...@gmail.comwrote: I would generally not try to add it to an existing source repository. Instead, follow one of the suggestions in http://www.gromacs.org/Developer_Zone/Git/Gerrit#How_do_I_get_a_copy_of_my_commit_for_which_someone_else_has_uploaded_a_patch.3f to check out that version. Mark On Tue, Oct 1, 2013 at 6:24 AM, Tegar Nurwahyu Wijaya tnurwahyuwij...@gmail.com wrote: Dear all, I want to install Extended Genbox from gerrit. https://gerrit.gromacs.org/#/c/1175/ How can I put this code into my existing gromacs installation? Thanks. Regards, Tegar -- gmx-users mailing listgmx-users@gromacs.org http://lists.gromacs.org/mailman/listinfo/gmx-users * Please search the archive at http://www.gromacs.org/Support/Mailing_Lists/Search before posting! * Please don't post (un)subscribe requests to the list. Use the www interface or send it to gmx-users-requ...@gromacs.org. * Can't post? Read http://www.gromacs.org/Support/Mailing_Lists -- gmx-users mailing listgmx-users@gromacs.org http://lists.gromacs.org/mailman/listinfo/gmx-users * Please search the archive at http://www.gromacs.org/Support/Mailing_Lists/Search before posting! * Please don't post (un)subscribe requests to the list. Use the www interface or send it to gmx-users-requ...@gromacs.org. * Can't post? Read http://www.gromacs.org/Support/Mailing_Lists -- gmx-users mailing listgmx-users@gromacs.org http://lists.gromacs.org/mailman/listinfo/gmx-users * Please search the archive at http://www.gromacs.org/Support/Mailing_Lists/Search before posting! * Please don't post (un)subscribe requests to the list. Use the www interface or send it to gmx-users-requ...@gromacs.org. * Can't post? Read http://www.gromacs.org/Support/Mailing_Lists
Re: [gmx-users] Installing Extended Genbox
On 10/1/13 10:58 AM, Tegar Nurwahyu Wijaya wrote: Hi Mark, Thank you for your reply. Actually I am not trying to add it to the repository. I have gromacs 4.6 installed in my computer. When I was trying using genbox, an error occurred caused by memory lacking. After searched this mailing list, I got that extended genbox code that can fix my problem. But I don't know how to put that code into my installed gromacs 4.6. Do you or anybody know how to do that? You need to clone the git repository (i.e. the development code) and then apply the patch with the instructions at the link Mark sent you. Further up on the page is how you get started in terms of obtaining the development code from git. It is unwise to try to apply a patch from the master branch on version 4.6; I doubt it would even work. -Justin Regards, Tegar On Tue, Oct 1, 2013 at 10:12 AM, Mark Abraham mark.j.abra...@gmail.comwrote: I would generally not try to add it to an existing source repository. Instead, follow one of the suggestions in http://www.gromacs.org/Developer_Zone/Git/Gerrit#How_do_I_get_a_copy_of_my_commit_for_which_someone_else_has_uploaded_a_patch.3f to check out that version. Mark On Tue, Oct 1, 2013 at 6:24 AM, Tegar Nurwahyu Wijaya tnurwahyuwij...@gmail.com wrote: Dear all, I want to install Extended Genbox from gerrit. https://gerrit.gromacs.org/#/c/1175/ How can I put this code into my existing gromacs installation? Thanks. Regards, Tegar -- gmx-users mailing listgmx-users@gromacs.org http://lists.gromacs.org/mailman/listinfo/gmx-users * Please search the archive at http://www.gromacs.org/Support/Mailing_Lists/Search before posting! * Please don't post (un)subscribe requests to the list. Use the www interface or send it to gmx-users-requ...@gromacs.org. * Can't post? Read http://www.gromacs.org/Support/Mailing_Lists -- gmx-users mailing listgmx-users@gromacs.org http://lists.gromacs.org/mailman/listinfo/gmx-users * Please search the archive at http://www.gromacs.org/Support/Mailing_Lists/Search before posting! * Please don't post (un)subscribe requests to the list. Use the www interface or send it to gmx-users-requ...@gromacs.org. * Can't post? Read http://www.gromacs.org/Support/Mailing_Lists -- == Justin A. Lemkul, Ph.D. Postdoctoral Fellow Department of Pharmaceutical Sciences School of Pharmacy Health Sciences Facility II, Room 601 University of Maryland, Baltimore 20 Penn St. Baltimore, MD 21201 jalem...@outerbanks.umaryland.edu | (410) 706-7441 == -- gmx-users mailing listgmx-users@gromacs.org http://lists.gromacs.org/mailman/listinfo/gmx-users * Please search the archive at http://www.gromacs.org/Support/Mailing_Lists/Search before posting! * Please don't post (un)subscribe requests to the list. Use the www interface or send it to gmx-users-requ...@gromacs.org. * Can't post? Read http://www.gromacs.org/Support/Mailing_Lists
Re: [gmx-users] Installing Extended Genbox
Since that patch is already merged, Tegar can just check out the (default) master branch - see http://www.gromacs.org/Developer_Zone/Git. The CMake build works the same way. I would suggest just using your-build-directory/bin/genbox once you have built it, i.e. do not go to the trouble of installing the development version. You should prefer to use the normal versions of all the tools unless you want to live on the edge! Mark On Tue, Oct 1, 2013 at 5:01 PM, Justin Lemkul jalem...@vt.edu wrote: On 10/1/13 10:58 AM, Tegar Nurwahyu Wijaya wrote: Hi Mark, Thank you for your reply. Actually I am not trying to add it to the repository. I have gromacs 4.6 installed in my computer. When I was trying using genbox, an error occurred caused by memory lacking. After searched this mailing list, I got that extended genbox code that can fix my problem. But I don't know how to put that code into my installed gromacs 4.6. Do you or anybody know how to do that? You need to clone the git repository (i.e. the development code) and then apply the patch with the instructions at the link Mark sent you. Further up on the page is how you get started in terms of obtaining the development code from git. It is unwise to try to apply a patch from the master branch on version 4.6; I doubt it would even work. -Justin Regards, Tegar On Tue, Oct 1, 2013 at 10:12 AM, Mark Abraham mark.j.abra...@gmail.com* *wrote: I would generally not try to add it to an existing source repository. Instead, follow one of the suggestions in http://www.gromacs.org/**Developer_Zone/Git/Gerrit#How_** do_I_get_a_copy_of_my_commit_**for_which_someone_else_has_** uploaded_a_patch.3fhttp://www.gromacs.org/Developer_Zone/Git/Gerrit#How_do_I_get_a_copy_of_my_commit_for_which_someone_else_has_uploaded_a_patch.3f to check out that version. Mark On Tue, Oct 1, 2013 at 6:24 AM, Tegar Nurwahyu Wijaya tnurwahyuwij...@gmail.com wrote: Dear all, I want to install Extended Genbox from gerrit. https://gerrit.gromacs.org/#/**c/1175/https://gerrit.gromacs.org/#/c/1175/ How can I put this code into my existing gromacs installation? Thanks. Regards, Tegar -- gmx-users mailing listgmx-users@gromacs.org http://lists.gromacs.org/**mailman/listinfo/gmx-usershttp://lists.gromacs.org/mailman/listinfo/gmx-users * Please search the archive at http://www.gromacs.org/**Support/Mailing_Lists/Searchhttp://www.gromacs.org/Support/Mailing_Lists/Searchbefore posting! * Please don't post (un)subscribe requests to the list. Use the www interface or send it to gmx-users-requ...@gromacs.org. * Can't post? Read http://www.gromacs.org/**Support/Mailing_Listshttp://www.gromacs.org/Support/Mailing_Lists -- gmx-users mailing listgmx-users@gromacs.org http://lists.gromacs.org/**mailman/listinfo/gmx-usershttp://lists.gromacs.org/mailman/listinfo/gmx-users * Please search the archive at http://www.gromacs.org/**Support/Mailing_Lists/Searchhttp://www.gromacs.org/Support/Mailing_Lists/Searchbefore posting! * Please don't post (un)subscribe requests to the list. Use the www interface or send it to gmx-users-requ...@gromacs.org. * Can't post? Read http://www.gromacs.org/**Support/Mailing_Listshttp://www.gromacs.org/Support/Mailing_Lists -- ==** Justin A. Lemkul, Ph.D. Postdoctoral Fellow Department of Pharmaceutical Sciences School of Pharmacy Health Sciences Facility II, Room 601 University of Maryland, Baltimore 20 Penn St. Baltimore, MD 21201 jalemkul@outerbanks.umaryland.**edu jalem...@outerbanks.umaryland.edu | (410) 706-7441 ==** -- gmx-users mailing listgmx-users@gromacs.org http://lists.gromacs.org/**mailman/listinfo/gmx-usershttp://lists.gromacs.org/mailman/listinfo/gmx-users * Please search the archive at http://www.gromacs.org/** Support/Mailing_Lists/Searchhttp://www.gromacs.org/Support/Mailing_Lists/Searchbefore posting! * Please don't post (un)subscribe requests to the list. Use the www interface or send it to gmx-users-requ...@gromacs.org. * Can't post? Read http://www.gromacs.org/**Support/Mailing_Listshttp://www.gromacs.org/Support/Mailing_Lists -- gmx-users mailing listgmx-users@gromacs.org http://lists.gromacs.org/mailman/listinfo/gmx-users * Please search the archive at http://www.gromacs.org/Support/Mailing_Lists/Search before posting! * Please don't post (un)subscribe requests to the list. Use the www interface or send it to gmx-users-requ...@gromacs.org. * Can't post? Read http://www.gromacs.org/Support/Mailing_Lists
[gmx-users] Installing Extended Genbox
Dear all, I want to install Extended Genbox from gerrit. https://gerrit.gromacs.org/#/c/1175/ How can I put this code into my existing gromacs installation? Thanks. Regards, Tegar -- gmx-users mailing listgmx-users@gromacs.org http://lists.gromacs.org/mailman/listinfo/gmx-users * Please search the archive at http://www.gromacs.org/Support/Mailing_Lists/Search before posting! * Please don't post (un)subscribe requests to the list. Use the www interface or send it to gmx-users-requ...@gromacs.org. * Can't post? Read http://www.gromacs.org/Support/Mailing_Lists
