Hi Norman, I'm very sorry for this problem! I am puzzled...it sounds like somehow SOLVE cannot write to the directory it is working in. (I have never seen this one before!) Can you try this: go to your home directory, make a subdirectory "test" there, get in the directory, and copy $PHENIX/examples/nsf-d2-sad/peak.sca to this subdirectory. Then run autosol by hand. Then (fail or not) do an ls -lt to show what the permissions are. Like this: cd mkdir test cd test cp $PHENIX/examples/nsf-d2-sad/peak.sca . phenix.autosol peak.sca quick=True build=False debug=True |tee test.log ls -lt If this works (you'll know because it gets past scaling and starts doing phasing)...it is file permissions of some sort. If it fails, hopefully something in test.log or AutoSol_run_1_/LAST.log or the "ls -lt" output will tell me something... Thank you! -Tom T ps. I did get your email yesterday on the help BB, but I replied to an incorrect email address. I'm sorry about that too! At 06:01 AM 11/7/2007, you wrote:
Content-class: urn:content-classes:message Content-Type: multipart/alternative; boundary="----_=_NextPart_001_01C8213E.3EA9AF22"
Hi -
I tried to run the example: phenix.run_example gene-5-mad
However, it stopped, with following error messages:
Done with gene-5-mad ...Your results are in the directory: gene-5-mad/AutoSol_run_1_ Missing the summary file: gene-5-mad/AutoSol_run_1_/ Something did not work properly...not all output files produced
and the LAST.LOG reports:
*************************************************************************** 6769 SOLVE STATUS 07-nov-07 12:47:15 6770 6771 DATASET TITLE: SOLVE 07-Nov-07 STATUS 6772 STATUS: UNABLE TO FIND UNIQUE NAME FOR SCRATCH 6773 --------------------------------------------------------------------------- 6774 Sorry -- ERROR ENDING. SEE the end of your log file or output STATUS 6775 and solve.log 6776 for more information STATUS
Any idea what is going wrong? (phenix version 1.3 beta rc4, 64bit computer, 2 dual core proc.)
Many thanks,
Norman _______________________________________________ phenixbb mailing list [email protected] http://www.phenix-online.org/mailman/listinfo/phenixbb
Thomas C. Terwilliger Mail Stop M888 Los Alamos National Laboratory Los Alamos, NM 87545 Tel: 505-667-0072 email: [email protected] Fax: 505-665-3024 SOLVE web site: http://solve.lanl.gov PHENIX web site: http:www.phenix-online.org ISFI Integrated Center for Structure and Function Innovation web site: http://techcenter.mbi.ucla.edu TB Structural Genomics Consortium web site: http://www.doe-mbi.ucla.edu/TB