[Pw_forum] Fwd: problem with running ./run_all_examples in PHonon/examples folder
Hello Anna, Check the following link hoping it will give you some hints where to go: http://www.quantum-espresso.org/faq/frequent-errors-during-execution/#5.2 Good Luck __ Iyad Al-Qasir, PhD Assistant Professor Department of Nuclear Engineering University of Sharjah Sharjah, UAE On Wed, Jul 16, 2014 at 4:34 PM, Anna Kuznetsova wrote: > Dear all, > > I have a problem with running examples in the PHonon folder using > ./run_all_examples command although the same command works well when doing > it for PW examples. There must be something special with the way ph.x > runs... > I have Mac 10.8.5 and QE 5.0.2, which was installed without any errors > just with couple warnings. The examples I was running are in its > PHonon/examples folder. > I would be grateful to you for your help. May be my installation of QE > lacks something... > Thank you > > Please see the beginning of my log below: > > alexey-sorokin:examples admin$ ./run_all_examples > > run_all_examples: starting > > /Applications/Quantum_ESPRESSO/espresso-5.0.2/PHonon/examples/example01 : > starting > > This example shows how to use pw.x and ph.x to calculate phonon > frequencies at Gamma and X for Si and C in the diamond structure and > for fcc-Ni. > > executables directory: /Applications/Quantum_ESPRESSO/espresso-5.0.2/bin > pseudo directory: > /Applications/Quantum_ESPRESSO/espresso-5.0.2/pseudo > temporary directory: /Users/admin/tmp > > checking that needed directories and files exist... done > > running pw.x as: > /Applications/Quantum_ESPRESSO/espresso-5.0.2/bin/pw.x -nband 1 -ntg 1 > running ph.x as: > /Applications/Quantum_ESPRESSO/espresso-5.0.2/bin/ph.x -nband 1 -ntg 1 > > cleaning /Users/admin/tmp... done > running the scf calculation for Si... done > running the phonon calculation at Gamma for Si... > Program received signal SIGSEGV: Segmentation fault - invalid memory > reference. > > Backtrace for this error: > #0 0x104991f92 > #1 0x10499275e > #2 0x7fff8b4e3909 > #3 0x7fff90aabd15 > #4 0x10343a3c4 > #5 0x103486d78 > #6 0x10343b353 > #7 0x103445170 > #8 0x1033edc3e > #9 0x1033ce55e > #10 0x1037eeb0e > example01/run_example: line 140: 16360 Segmentation fault: 11 $PH_COMMAND > < si.phG.in > si.phG.out > done > running the phonon calculation at X for Si... > Program received signal SIGSEGV: Segmentation fault - invalid memory > reference. > > Backtrace for this error: > #0 0x105ad2f92 > #1 0x105ad375e > #2 0x7fff8b4e3909 > #3 0x7fff90aabd15 > #4 0x1045aba21 > #5 0x104583901 > #6 0x10450d5a6 > #7 0x10492db0e > example01/run_example: line 156: 16366 Segmentation fault: 11 $PH_COMMAND > < si.phX.in > si.phX.out > Error condition encountered during test: exit status = 139 > Aborting > > > -- > Best regards, > Anna > > ___ > Pw_forum mailing list > Pw_forum at pwscf.org > http://pwscf.org/mailman/listinfo/pw_forum > -- next part -- An HTML attachment was scrubbed... URL: http://pwscf.org/pipermail/pw_forum/attachments/20140717/dd3db407/attachment.html
[Pw_forum] Fwd: problem with running ./run_all_examples in PHonon/examples folder
Dear all, I have a problem with running examples in the PHonon folder using ./run_all_examples command although the same command works well when doing it for PW examples. There must be something special with the way ph.x runs... I have Mac 10.8.5 and QE 5.0.2, which was installed without any errors just with couple warnings. The examples I was running are in its PHonon/examples folder. I would be grateful to you for your help. May be my installation of QE lacks something... Thank you Please see the beginning of my log below: alexey-sorokin:examples admin$ ./run_all_examples run_all_examples: starting /Applications/Quantum_ESPRESSO/espresso-5.0.2/PHonon/examples/example01 : starting This example shows how to use pw.x and ph.x to calculate phonon frequencies at Gamma and X for Si and C in the diamond structure and for fcc-Ni. executables directory: /Applications/Quantum_ESPRESSO/espresso-5.0.2/bin pseudo directory: /Applications/Quantum_ESPRESSO/espresso-5.0.2/pseudo temporary directory: /Users/admin/tmp checking that needed directories and files exist... done running pw.x as: /Applications/Quantum_ESPRESSO/espresso-5.0.2/bin/pw.x -nband 1 -ntg 1 running ph.x as: /Applications/Quantum_ESPRESSO/espresso-5.0.2/bin/ph.x -nband 1 -ntg 1 cleaning /Users/admin/tmp... done running the scf calculation for Si... done running the phonon calculation at Gamma for Si... Program received signal SIGSEGV: Segmentation fault - invalid memory reference. Backtrace for this error: #0 0x104991f92 #1 0x10499275e #2 0x7fff8b4e3909 #3 0x7fff90aabd15 #4 0x10343a3c4 #5 0x103486d78 #6 0x10343b353 #7 0x103445170 #8 0x1033edc3e #9 0x1033ce55e #10 0x1037eeb0e example01/run_example: line 140: 16360 Segmentation fault: 11 $PH_COMMAND < si.phG.in > si.phG.out done running the phonon calculation at X for Si... Program received signal SIGSEGV: Segmentation fault - invalid memory reference. Backtrace for this error: #0 0x105ad2f92 #1 0x105ad375e #2 0x7fff8b4e3909 #3 0x7fff90aabd15 #4 0x1045aba21 #5 0x104583901 #6 0x10450d5a6 #7 0x10492db0e example01/run_example: line 156: 16366 Segmentation fault: 11 $PH_COMMAND < si.phX.in > si.phX.out Error condition encountered during test: exit status = 139 Aborting -- Best regards, Anna -- next part -- An HTML attachment was scrubbed... URL: http://pwscf.org/pipermail/pw_forum/attachments/20140716/19391c0c/attachment.html
[Pw_forum] Fwd: problem with running ./run_all_examples in PHonon/examples folder
See point 5.2 of the FAQ, http://www.quantum-espresso.org/faq/frequent-errors-during-execution/#5.2 On the Mac, mathematical libraries are a frequent source of trouble. P. On Mon, 2014-07-14 at 22:13 -0500, Anna Kuznetsova wrote: > Dear all, > > > I have a problem with running examples in the PHonon folder > using ./run_all_examples command although the same command works well > when doing it for PW examples. There must be something special with > the way ph.x runs... > I have Mac 10.8.5 and QE 5.0.2, which was installed without any errors > just with couple warnings. The examples I was running are in its > PHonon/examples folder. > I would be grateful to you for your help. May be my installation of QE > lacks something... > Thank you > > > Please see the beginning of my log below: > > > alexey-sorokin:examples admin$ ./run_all_examples > > > > run_all_examples: starting > > > /Applications/Quantum_ESPRESSO/espresso-5.0.2/PHonon/examples/example01 : > starting > > > This example shows how to use pw.x and ph.x to calculate phonon > frequencies at Gamma and X for Si and C in the diamond structure and > for fcc-Ni. > > > executables > directory: /Applications/Quantum_ESPRESSO/espresso-5.0.2/bin > pseudo directory: > /Applications/Quantum_ESPRESSO/espresso-5.0.2/pseudo > temporary directory: /Users/admin/tmp > > > checking that needed directories and files exist... done > > > running pw.x as: > /Applications/Quantum_ESPRESSO/espresso-5.0.2/bin/pw.x -nband 1 > -ntg 1 > running ph.x as: > /Applications/Quantum_ESPRESSO/espresso-5.0.2/bin/ph.x -nband 1 > -ntg 1 > > > cleaning /Users/admin/tmp... done > running the scf calculation for Si... done > running the phonon calculation at Gamma for Si... > Program received signal SIGSEGV: Segmentation fault - invalid memory > reference. > > > Backtrace for this error: > #0 0x104991f92 > #1 0x10499275e > #2 0x7fff8b4e3909 > #3 0x7fff90aabd15 > #4 0x10343a3c4 > #5 0x103486d78 > #6 0x10343b353 > #7 0x103445170 > #8 0x1033edc3e > #9 0x1033ce55e > #10 0x1037eeb0e > example01/run_example: line 140: 16360 Segmentation fault: 11 > $PH_COMMAND < si.phG.in > si.phG.out > done > running the phonon calculation at X for Si... > Program received signal SIGSEGV: Segmentation fault - invalid memory > reference. > > > Backtrace for this error: > #0 0x105ad2f92 > #1 0x105ad375e > #2 0x7fff8b4e3909 > #3 0x7fff90aabd15 > #4 0x1045aba21 > #5 0x104583901 > #6 0x10450d5a6 > #7 0x10492db0e > example01/run_example: line 156: 16366 Segmentation fault: 11 > $PH_COMMAND < si.phX.in > si.phX.out > Error condition encountered during test: exit status = 139 > Aborting > > > > > -- > Best regards, > Anna Kuznetsova > > > > > -- > Best regards, > Anna > ___ > Pw_forum mailing list > Pw_forum at pwscf.org > http://pwscf.org/mailman/listinfo/pw_forum
[Pw_forum] Fwd: problem with running ./run_all_examples in PHonon/examples folder
Dear all, I have a problem with running examples in the PHonon folder using ./run_all_examples command although the same command works well when doing it for PW examples. There must be something special with the way ph.x runs... I have Mac 10.8.5 and QE 5.0.2, which was installed without any errors just with couple warnings. The examples I was running are in its PHonon/examples folder. I would be grateful to you for your help. May be my installation of QE lacks something... Thank you Please see the beginning of my log below: alexey-sorokin:examples admin$ ./run_all_examples run_all_examples: starting /Applications/Quantum_ESPRESSO/espresso-5.0.2/PHonon/examples/example01 : starting This example shows how to use pw.x and ph.x to calculate phonon frequencies at Gamma and X for Si and C in the diamond structure and for fcc-Ni. executables directory: /Applications/Quantum_ESPRESSO/espresso-5.0.2/bin pseudo directory: /Applications/Quantum_ESPRESSO/espresso-5.0.2/pseudo temporary directory: /Users/admin/tmp checking that needed directories and files exist... done running pw.x as: /Applications/Quantum_ESPRESSO/espresso-5.0.2/bin/pw.x -nband 1 -ntg 1 running ph.x as: /Applications/Quantum_ESPRESSO/espresso-5.0.2/bin/ph.x -nband 1 -ntg 1 cleaning /Users/admin/tmp... done running the scf calculation for Si... done running the phonon calculation at Gamma for Si... Program received signal SIGSEGV: Segmentation fault - invalid memory reference. Backtrace for this error: #0 0x104991f92 #1 0x10499275e #2 0x7fff8b4e3909 #3 0x7fff90aabd15 #4 0x10343a3c4 #5 0x103486d78 #6 0x10343b353 #7 0x103445170 #8 0x1033edc3e #9 0x1033ce55e #10 0x1037eeb0e example01/run_example: line 140: 16360 Segmentation fault: 11 $PH_COMMAND < si.phG.in > si.phG.out done running the phonon calculation at X for Si... Program received signal SIGSEGV: Segmentation fault - invalid memory reference. Backtrace for this error: #0 0x105ad2f92 #1 0x105ad375e #2 0x7fff8b4e3909 #3 0x7fff90aabd15 #4 0x1045aba21 #5 0x104583901 #6 0x10450d5a6 #7 0x10492db0e example01/run_example: line 156: 16366 Segmentation fault: 11 $PH_COMMAND < si.phX.in > si.phX.out Error condition encountered during test: exit status = 139 Aborting -- Best regards, Anna Kuznetsova -- Best regards, Anna -- next part -- An HTML attachment was scrubbed... URL: http://pwscf.org/pipermail/pw_forum/attachments/20140714/976a27b3/attachment.html