Hi Inchul, Can you try running with "debug=True" and see if the output has more helpful information? Also can you verify that you have a very recent version of phenix (there is a version from yesterday now available). If these are not helpful, can you send me (not the list) your full output file AutoMR_run_xx_/AutoMR_run_xx.log and also the last log file in an AutoBuild_run_xx_/TEMP0/AutoBuild_run_yy_/AutoBuild_run_yy_1.log or similar file. The work is being done in this subdirectory of the AutoBuild directory. This may have useful information Thanks! All the best, Tom T
Hi, everyone
I have a problem in running phenix.automr
I started AutoMR with the command:
---------------------------------------------------------------------------- -----
phenix.automr build=True data=ZZZZZZ_H-Nat_x22_P3221_from_P321.sca \
coords='1_SMsp.pdb 2_SMsp.pdb 3_SMsp.pdb 4_SMsp.pdb' \
identity='40 32 29 27' seq_file=ZZZZZZ_seq.dat input_seq_file=ZZZZZZ_seq.dat \
copies=4
---------------------------------------------------------------------------- ------
AutoMR process seems to be done without any error
but during autobuild process, I encounterd an error message as follows
---------------------------------------------------------------------------- -----
Re-using input PDB coordinates in build this cycle
Running 3 parallel build jobs
Standard build in parallel starting with refine.pdb_1
This is the first try at building this model
Setting background=False as nproc=1
Try: 1 building 1 model
Try: 2 building 1 model
Try: 3 building 1 model
Running up to 1 jobs in parallel... with total of 3 jobs
Splitting work into 3 jobs and running 1 at a time with csh in
/data1/disk02/icshin/UGI/MR/PHENIX_MR_8/AutoBuild_run_1_/TEMP0
Starting job 1...
**************************************************************************** ****
Failed to carry out AutoBuild_build_cycle:
child process stderr output:
command: 'csh /data1/disk02/icshin/ZZZ/MR/PHENIX_MR_8/AutoBuild_run_1_/TEMP0/RUN_FILE_1'
icshin_com: No such file or directory.
**************************************************************************** ****
---------------------------------------------------------------------------- ----------------------------------------------------------
What am I supposed to do? Please, help me!
-------------------------------------------------------
Inchul Shin
Structural Biology Lab. CALS. Seoul Nationl Univ.
_______________________________________________ phenixbb mailing list [email protected] http://phenix-online.org/mailman/listinfo/phenixbb