The extract from the log file looks OK - can you send the whole log.txt? Eleanor
On Fri, 25 Jun 2021 at 12:09, Savvas Savvides <[email protected]> wrote: > Dear colleagues, > > I am trying to run Parrot via CCP4-7.1.014 and the CCP4i2 GUI on a > MacBookPro (OSX 10.15.7) and keep getting the following error report as the > program is in the process of outputting SigmaA statistics. > > Below, I provide two pieces of information: > (1) The Error message > (2) The last page of the ouput file where the program ends up crashing > with the error message. > > Thank you in advance for any insights/input on this issue. > > Best wishes, > Savvas > > > > ---------------------------- > > > Error Report for Job 41: Density modification - PARROT > > -ERROR- CTaskParrot:9 Error in wrapper parrot 0.0:: Failed starting external > process > > - this can be due to a number of things, but usually is due to the command > used by subprocess/QProcess not working for some reason. > > Missing input files, bad commands, non-functional programs etc. Check log > files and stdout. > Process: cparrot > > -ERROR- CTaskParrot:47 Error in wrapper parrot 0.0:: Error in checking > external process after completion > exit status and code: -11 -11 > > > > ———-------------------- > > -- Cycle: 1 -------------------------------- > > Suggested radius for solvent mask determination: 5.68666 > > NCS operator: 1 > NCS masking: Mask volume as fraction of ASU: 1.00 Multiplicity: 10 > Contiguity score: 1.000 Self-overlap score: 0.151 > NXop refinement- correlation before: 0.539, after: 0.581 > NXop old: -57.7 179.7 122.8 -5.6 10.0 36.4 -5.5 39.0 64.4 > NXop new: 105.8 180.0 -74.1 -7.4 11.2 40.1 -7.3 37.8 60.9 > > NCS operator: 2 > NCS masking: Mask volume as fraction of ASU: 1.00 Multiplicity: 10 > Contiguity score: 1.000 Self-overlap score: 0.154 > NXop refinement- correlation before: 0.528, after: 0.577 > NXop old: 57.2 179.7 -122.3 -5.5 39.0 64.4 -5.6 10.0 36.4 > NXop new: -94.6 179.8 85.4 -3.8 36.5 60.3 -3.8 12.5 40.6 > > NCS operator: 3 > NCS masking: Mask volume as fraction of ASU: 0.95 Multiplicity: 9 > Contiguity score: 0.999 Self-overlap score: 0.149 > NXop refinement- correlation before: 0.447, after: 0.606 > NXop old: -100.7 178.5 79.6 -17.7 33.0 93.4 -17.9 16.1 7.4 > NXop new: -140.4 179.8 39.7 -9.8 36.7 79.4 -9.9 12.4 21.6 > > NCS operator: 4 > NCS masking: Mask volume as fraction of ASU: 0.89 Multiplicity: 9 > Contiguity score: 0.998 Self-overlap score: 0.179 > NXop refinement- correlation before: 0.423, after: 0.588 > NXop old: 100.4 178.5 -79.3 -17.9 16.1 7.4 -17.7 33.0 93.4 > NXop new: 144.0 179.8 -36.0 -24.0 11.7 20.5 -23.7 37.5 80.6 > > <B><FONT COLOR='#FF0000'><!--SUMMARY_BEGIN--> > NCS operator statistics: > Operator_number Mask_volume/ASU Correlation > 1 1.001 0.911 > 2 0.998 0.912 > 3 0.954 0.863 > 4 0.888 0.854 > <!--SUMMARY_END--></FONT></B> > > $TABLE :Cycle 1 Electron density histograms: > $GRAPHS :Protein:N:1,4,5,6::Solvent:N:1,7,8::Simulation:N:1,3,4: $$ > rho_min rho_max Simulatn P_init P_trgt P_mod S_init S_mod $$ > $$ > -0.317 -0.282 0.000 0.000 0.017 0.008 0.000 0.000 > -0.282 -0.247 0.000 0.000 0.026 0.014 0.000 0.000 > -0.247 -0.212 0.002 0.002 0.036 0.024 0.000 0.000 > -0.212 -0.177 0.007 0.007 0.045 0.039 0.000 0.000 > -0.177 -0.143 0.022 0.019 0.057 0.056 0.003 0.000 > -0.143 -0.108 0.050 0.048 0.064 0.076 0.020 0.000 > -0.108 -0.073 0.093 0.094 0.071 0.081 0.069 0.000 > -0.073 -0.038 0.142 0.147 0.070 0.090 0.156 0.000 > -0.038 -0.003 0.172 0.175 0.072 0.091 0.234 0.000 > -0.003 0.032 0.172 0.173 0.068 0.085 0.237 1.000 > 0.032 0.067 0.141 0.141 0.063 0.075 0.167 0.000 > 0.067 0.101 0.099 0.094 0.057 0.071 0.080 0.000 > 0.101 0.136 0.056 0.053 0.053 0.063 0.026 0.000 > 0.136 0.171 0.029 0.026 0.049 0.053 0.006 0.000 > 0.171 0.206 0.011 0.012 0.044 0.048 0.001 0.000 > 0.206 0.241 0.004 0.005 0.038 0.038 0.000 0.000 > 0.241 0.276 0.001 0.002 0.033 0.033 0.000 0.000 > 0.276 0.311 0.000 0.001 0.030 0.025 0.000 0.000 > 0.311 0.345 0.000 0.000 0.025 0.016 0.000 0.000 > 0.345 0.380 0.000 0.000 0.021 0.014 0.000 0.000 > $$ > > > Gamma 0.24162 > > Log likelihood: 2.920853e+04 Log likelihood (free): 0.000000e+00 > > $TABLE :Cycle 1 SigmaA statistics: > $GRAPHS :SigmaA statistics:N:1,2,3: $$ > 1/resol^2 sigmaA(s) sigmaA(w) $$ > $$ > 0.012 0.682 0.675 > 0.025 0.629 0.635 > 0.035 0.659 0.664 > 0.043 0.666 0.670 > 0.051 0.619 0.638 > 0.059 0.515 0.593 > 0.066 0.452 0.656 > $$ > > > > ------------------------------ > > To unsubscribe from the CCP4BB list, click the following link: > https://www.jiscmail.ac.uk/cgi-bin/WA-JISC.exe?SUBED1=CCP4BB&A=1 > ######################################################################## To unsubscribe from the CCP4BB list, click the following link: https://www.jiscmail.ac.uk/cgi-bin/WA-JISC.exe?SUBED1=CCP4BB&A=1 This message was issued to members of www.jiscmail.ac.uk/CCP4BB, a mailing list hosted by www.jiscmail.ac.uk, terms & conditions are available at https://www.jiscmail.ac.uk/policyandsecurity/
