After remove the run, the subdirectories still existing ... After close taverna still existing. I re-run the 10000 iterations workflow again, without deleting the subdiretories and ...
>> After the first 10000 iterations workflow execution, there were 100000 >> subdirectories in /tmp: >> susana@dae53:/tmp$ ls -l usecase* |wc 100004 380021 3261102 >> Before to run the 10000 iterations workflow a second time, I closed >> Taverna, because I thought closing taverna the provenance data is >> deleted, so this 100000 subdirectories will be removed, but not, this >> subdirectories were not removed. > > Did you delete the run in the results perspective? No, I didn't >> Thinking that maybe this 100000 >> subdirectories were not a problem, I run a second time my 10000 >> iterations workflow, but when it finished I got a lot of error >> messages in my output values like that: >> java.io.FileNotFoundException: >> /tmp/usecase5980252654117511742dir/filetmp.txt (No such file or >> directory) > > That is not what I would expect. I'd expect that to happen if you > deleted the directories _while_ the workflow was running, or if you > tried to look at results of previous runs and you have deleted the > directories. No, I didn't delete these directories while the workflow was running. I think this directories could not be created, maybe because there is a limit on the number of subidrectories dependending on the file system, is it possible? >> So I guess the huge amount of subdirectories was a problem, so I >> deleted them and I re-run the 10000 iterations workflow ant it worked! >> Is there a way to say to Taverna that delete this subdirectories? > > The directories are deleted when you delete the run. I deleted the run in the results perspective as you said, but after that the subdirectories were not deleted. I thought I had to re-start Taverna, so I re-started taverna, but the subdirectories were still in /tmp. I tried to run again the 10000 iterations workflow (without deleting the subdirectories manually), and again I got the same messages error: java.io.FileNotFoundException: /tmp/usecase8702307436714080856dir/filetmp.txt (No such file or directory) I think the problem is a limit on the number of subdirectories, because, this morning when I saw the workflow finished with this error, I tried to open one application that I know it writes something in /tmp when is starting-up (synaptic package manager) and it gives me an error like "unable copy the authorization data" or something similar, and after deleting manually these subdirectories, I could start this application without problem. I have started to run the workflow again, with the subdirectories deleted manually, and I am sure the workflow will finish ok this time. > If this continues to be a problem, I can raise an issue to have a flag > on the tool service that will "pull" the data from the sub-directory and > delete the sub-directory as soon as the call of the tool is finished. > That will slow down the tool calling and also reduce the size of data > that the tool service can handle. > >> Susana > > Alan > > > ------------------------------------------------------------------------------ > The demand for IT networking professionals continues to grow, and the > demand for specialized networking skills is growing even more rapidly. > Take a complimentary Learning@Cisco Self-Assessment and learn > about Cisco certifications, training, and career opportunities. > http://p.sf.net/sfu/cisco-dev2dev > _______________________________________________ > taverna-users mailing list > [email protected] > [email protected] > Web site: http://www.taverna.org.uk > Mailing lists: http://www.taverna.org.uk/about/contact-us/ > -- Susana Sánchez Expósito Instituto de Astrofísica de Andalucía IAA (CSIC) Camino Bajo de Huétor, 50. Granada E-18008 Tel:(+34) 958 121 311 / (+34) 958 230 618 Fax:(+34) 958 814 530 e-mail: [email protected] ------------------------------------------------------------------------------ The demand for IT networking professionals continues to grow, and the demand for specialized networking skills is growing even more rapidly. Take a complimentary Learning@Cisco Self-Assessment and learn about Cisco certifications, training, and career opportunities. http://p.sf.net/sfu/cisco-dev2dev _______________________________________________ taverna-users mailing list [email protected] [email protected] Web site: http://www.taverna.org.uk Mailing lists: http://www.taverna.org.uk/about/contact-us/
