<div dir="ltr">It's probably an AppArmor problem. I thought I'd disabled it in recent builds but it may not have worked. If you're comfortable changing kernel boot parameters, try adding 'apparmor=0' and see if that helps.</div><div class="gmail_extra"> <div class="gmail_quote">On Mon, Sep 8, 2014 at 3:02 PM, Emily M. Bender <<a href="mailto:ebender@uw.edu" target="_blank">ebender@uw.edu</a>> wrote: <blockquote class="gmail_quote" style="margin:0 0 0 .8ex;border-left:1px #ccc solid;padding-left:1ex"><div dir="ltr">[Again, adding developers back to the cc.]<div> </div><div>Joshua, I think you just established that there's nothing wrong with the skeleton, but that's not too surprising. The problem seems to be with [incr tsdb()]'s ability to "see" certain directories on the UbuntuLKB distro. I'm cc-ing David B. in the hopes that he might have some time to look at this with Alec and/or some ideas.</div><div> </div><div>Emily</div><div> </div><div><div> </div><div> </div></div></div><div class="gmail_extra"> <div class="gmail_quote">On Sun, Sep 7, 2014 at 9:33 AM, Alexander Sugar <<a href="mailto:sugara@uw.edu" target="_blank">sugara@uw.edu</a>> wrote: <blockquote class="gmail_quote" style="margin:0 0 0 .8ex;border-left:1px #ccc solid;padding-left:1ex">Joshua, Somehow in updating my VirtualBox, I lost previous test suite instances. If I point my database root at the opt/delphin/... path that's set as a default, I am able to see those profiles in the podium after I create them (and I get the same "unable to write history file message", so that's definitely not the issue). I'm using version 2.0 (16-jun-13; beta) of [incr tsdb()] on UbuntuLKB 17. <div><div> - Alec On 9/6/14, Joshua Crowgey <<a href="mailto:jcrowgey@u.washington.edu" target="_blank">jcrowgey@u.washington.edu</a>> wrote: > Hi Alec, > > I doubt that .tsdb_history is the issue. In Unix-like systems, many > programs will store config info or other user-settings in files that > start with "." in the user's home directory. If you say (in a shell): > > $ ls -la ~/ > > You'll see several such files, probably at least .emacs, .bashrc. In my > own system, I suppose that .tsdb_history stores your tsdb commands so > that (maybe?) you can press "up" and see the previous command, or > something like that. I found a .tsdb_history with these lines: > > jcrowgey@citrus:~$ cat .tsdb_history > do "/tmp/.tsdb.io.jcrowgey.11333.118378". > do "/tmp/.tsdb.io.jcrowgey.11333.118384". > > Because I've restarted my system since I last used tsdb, the /tmp > directory has been cleared and I'm not sure what was in those > /tmp/.tsdb.io.jcrowgey.* files. My guess is those were a record of my > sessions this morning when I was playing around with your item and > relations files. > > Anyway, the fact that the files were created is interesting, I think. > It suggests that tsdb can create the new files, but we still don't know > why it can't read those files and display them in the podium. > > This makes me thing of another troubleshooting/debugging test. Can you > see other existing testsuite instances? That is, if you already had a > profile with results and such, and you point your database root at that > dir, do those profiles show up in the podium? > > Sorry I don't really have good answers for you. I just thought I'd jump > in and give you some stuff to try out. By the way, are you using the > knoppix+lkb distro? What are the details of your platform? > > --Joshua > > On 09/06/2014 05:53 PM, Alexander Sugar wrote: >> Hi Joshua, >> >> I think the reason I didn't see anything printed out in emacs >> was because I had previously 'created' an instance. When I cleared out >> the files inside of the home folder, I saw the same lines printed as >> you, except in the end: >> >> initialize(): creating empty data file for `score'. >> main(): no history file `.tsdb_history'. >> >> And of course no instance showed up in the podium. I'm guessing the >> '.tsdb_history' line is the source of the problem. Is there a quick >> fix for it? If so, that's great but I'm sorry to have put you through >> so much trouble just now... >> >> - Alec >> >> On 9/6/14, Joshua Crowgey <<a href="mailto:jcrowgey@u.washington.edu" target="_blank">jcrowgey@u.washington.edu</a>> wrote: >>> Hi Alec, >>> >>> I put your item and relations files into a dir and pointed my itsdb at >>> them and as far as I can tell, they loaded without a problem---ie, tsdb >>> was able to create a new instance and I see it appear in the podium >>> window. >>> >>> As to stderr, I think if you start tsdb in emacs then all of the >>> messages get printed there. When I click to create a new instance of >>> your item and relations files, I see: >>> >>> LKB(2): initialize(): creating empty data file for `analysis'. >>> initialize(): creating empty data file for `phenomenon'. >>> initialize(): creating empty data file for `parameter'. >>> initialize(): creating empty data file for `set'. >>> initialize(): creating empty data file for `item-phenomenon'. >>> initialize(): creating empty data file for `item-set'. >>> initialize(): creating empty data file for `run'. >>> initialize(): creating empty data file for `parse'. >>> initialize(): creating empty data file for `result'. >>> initialize(): creating empty data file for `rule'. >>> initialize(): creating empty data file for `output'. >>> initialize(): creating empty data file for `edge'. >>> initialize(): creating empty data file for `tree'. >>> initialize(): creating empty data file for `decision'. >>> initialize(): creating empty data file for `preference'. >>> initialize(): creating empty data file for `update'. >>> initialize(): creating empty data file for `fold'. >>> initialize(): creating empty data file for `score'. >>> close-connection(): >>> `/home/jcrowgey/Desktop/alexsugar/tsdb/anonymous/alex/14-09-06/lkb1/' >>> expiry >>> >>> You don't see anything happening there, eh? I'm not sure it would help, >>> but it might be interesting to try this: >>> >>> Since all the tsdb instance is (before you use it) is just a set of >>> empty files + copies of the item and relations files, you could simply >>> make the instance yourself on the command line and then see if tsdb can >>> recognize and already created one. Perhaps this would give a clue as to >>> whether the issue is in creating files or if reading files is affected >>> too. >>> >>> I think the usual directory structure is: >>> >>> $DATABASEROOT/NAME_OF_GRAMMAR/NAME_OF_TS/DATE/lkb/ >>> >>> Then, inside that final dir, you just put a copy of item and relations >>> plus empty files with the following names: >>> >>> jcrowgey@citrus:~/Desktop/alexsugar/tsdb$ ls -la >>> anonymous/alex/14-09-06/lkb >>> total 56 >>> drwxr-xr-x 2 jcrowgey jcrowgey 4096 Sep 6 13:14 . >>> drwxr-xr-x 4 jcrowgey jcrowgey 4096 Sep 6 13:15 .. >>> -rw-r--r-- 1 jcrowgey jcrowgey 0 Sep 6 13:14 analysis >>> -rw-r--r-- 1 jcrowgey jcrowgey 0 Sep 6 13:14 decision >>> -rw-r--r-- 1 jcrowgey jcrowgey 0 Sep 6 13:14 edge >>> -rw-r--r-- 1 jcrowgey jcrowgey 0 Sep 6 13:14 fold >>> -rw-r--r-- 1 jcrowgey jcrowgey 36234 Sep 6 13:14 item >>> -rw-r--r-- 1 jcrowgey jcrowgey 0 Sep 6 13:14 item-phenomenon >>> -rw-r--r-- 1 jcrowgey jcrowgey 0 Sep 6 13:14 item-set >>> -rw-r--r-- 1 jcrowgey jcrowgey 0 Sep 6 13:14 output >>> -rw-r--r-- 1 jcrowgey jcrowgey 0 Sep 6 13:14 parameter >>> -rw-r--r-- 1 jcrowgey jcrowgey 0 Sep 6 13:14 parse >>> -rw-r--r-- 1 jcrowgey jcrowgey 0 Sep 6 13:14 phenomenon >>> -rw-r--r-- 1 jcrowgey jcrowgey 0 Sep 6 13:14 preference >>> -rw-r--r-- 1 jcrowgey jcrowgey 9746 Sep 6 13:14 relations >>> -rw-r--r-- 1 jcrowgey jcrowgey 0 Sep 6 13:14 result >>> -rw-r--r-- 1 jcrowgey jcrowgey 0 Sep 6 13:14 rule >>> -rw-r--r-- 1 jcrowgey jcrowgey 0 Sep 6 13:14 run >>> -rw-r--r-- 1 jcrowgey jcrowgey 0 Sep 6 13:14 score >>> -rw-r--r-- 1 jcrowgey jcrowgey 0 Sep 6 13:14 set >>> -rw-r--r-- 1 jcrowgey jcrowgey 0 Sep 6 13:14 tree >>> -rw-r--r-- 1 jcrowgey jcrowgey 0 Sep 6 13:14 update >>> >>> I don't know if it will help, but if you can initialize your own >>> instance and tsdb is able to read it, that might help you go ahead with >>> your grammar testing and it might help "developers" get an idea of what >>> part of the program is going wrong. >>> >>> Sorry I don't have anything better for you, >>> >>> --Joshua >>> >>> On 09/05/2014 05:01 PM, Alexander Sugar wrote: >>>> I don't see any error messages appearing either in STDERR (which I >>>> assume is the bar at the bottom-right of the [tsdb()] window) or emacs >>>> (which I used to start tsdb). >>>> >>>> I'm attaching my 'item' and 'relations' files. Thanks a lot for looking >>>> at >>>> them.<div><div class="h5"> >>>> - Alec >>>> >>>> On 9/5/14, Joshua Crowgey <<a href="mailto:jcrowgey@u.washington.edu" target="_blank">jcrowgey@u.washington.edu</a>> wrote: >>>>> I see. In fact, now that I think about it, the fact that your >>>>> testsuite >>>>> appears under File > Create seems to indicate that skeletons and >>>>> Index.lisp are correct. >>>>> >>>>> When you click on your testsuite under File > Create and nothing >>>>> appears >>>>> in the window, is there any text or error messages that appear in >>>>> STDERR >>>>> or in emacs (if you started tsdb using the emacs interface)? >>>>> >>>>> Also, if you want to send me your 'item' and 'relations' files I can >>>>> try >>>>> to replicate your error on my system. >>>>> >>>>> --Joshua >>>>> >>>>> On 09/05/2014 03:37 PM, Alexander Sugar wrote: >>>>>> Hi Joshua, >>>>>> >>>>>> Thanks for offering your help. I just double checked, and my >>>>>> skeletons directory indeed has Relations (with a capital 'R') and >>>>>> Index.lisp. The latter points to the folders 'testsuite' and >>>>>> 'testcorpus', which each contain an 'item' and 'relations' file. >>>>>> >>>>>> - Alec >>>>>> >>>>>> On 9/5/14, Joshua Crowgey <<a href="mailto:jcrowgey@u.washington.edu" target="_blank">jcrowgey@u.washington.edu</a>> wrote: >>>>>>> Hi Alex, >>>>>>> >>>>>>> I'm not super-fluent with tsdb, but just to make sure you tried it: >>>>>>> have >>>>>>> you double-checked that the skeletons root is set correctly? It >>>>>>> should >>>>>>> be pointing to a directory that contains Relations and Index.lisp >>>>>>> where >>>>>>> Relations gives the schema for the fields in the tsdb profiles and >>>>>>> Index.lisp gives paths to testsuites. >>>>>>> >>>>>>> --Joshua >>>>>>> >>>>>>> On 09/05/2014 12:01 PM, Alexander Sugar wrote: </div></div><div><div class="h5"> >>>>>>>> To whom it may concern, >>>>>>>> >>>>>>>> I am a graduate student at the University of Washington >>>>>>>> learning >>>>>>>> how to use Delph-in tools like [incr tsdb()]. Recently, when I try >>>>>>>> to >>>>>>>> process my small uig grammar in [incr tsdb()], I see my test suite >>>>>>>> and >>>>>>>> one test corpus under File > Create. After clicking 'create', >>>>>>>> however, >>>>>>>> no test suite instances appear in my window. Could you please help >>>>>>>> me >>>>>>>> fix this problem? >>>>>>>> >>>>>>>> Thank you, >>>>>>>> Alexander Sugar >>>>>>>> >>>>>>> >>>>> >>> > </div></div></div></div></blockquote></div> <div> </div>-- Emily M. Bender Associate Professor Department of Linguistics Check out CLMS on facebook! <a href="http://www.facebook.com/uwclma" target="_blank">http://www.facebook.com/uwclma</a> </div> </blockquote></div> <div> </div>-- <span style="border-collapse:separate;color:rgb(0,0,0);font-family:Helvetica;font-size:12px;font-style:normal;font-variant:normal;font-weight:normal;letter-spacing:normal;line-height:normal;text-indent:0px;text-transform:none;white-space:normal;word-spacing:0px"><span style="border-collapse:separate;color:rgb(0,0,0);font-family:Helvetica;font-size:12px;font-style:normal;font-variant:normal;font-weight:normal;letter-spacing:normal;line-height:normal;text-indent:0px;text-transform:none;white-space:normal;word-spacing:0px"><div>David Brodbeck</div><div>System Administrator, Linguistics</div><div>University of Washington</div> </div>