Yes, I think given that you are getting output from umls-similarity.plcommand, the errors you are seeing with "make test" can safely be disregarded. That said we should clean up the installation process a bit, but it would appear to me that things are working for you at this point.
Cordially, Ted On Sun, Mar 9, 2014 at 1:01 PM, <[email protected]> wrote: > > > My apologies all for slow response. Reason for delay: index creation so > queries would run faster. Ying, Ted, help/support much appreciated. > > Here's my situation as it stands: > > Instructions to install UMLS-Interface, and UMLS-Similarity. > > perl Makefile.PL > nmake > nmake test > nmake install > > UMLS-Interface: > Commands 1 and 2 - success; > Command 3 - error still persists; > then, hoping that test error is only because of File::Spec package and > assuming that all other packages installed alright, proceeded to... > Command 4 - success. > > UMLS-Similarity: > all 4 commands - success. > > Run test query: > Test Query 1 > > -------------------------------------------------------------------------------------------------- > C:\NLP>umls-similarity.pl --measure lesk C0633633 C1311834 > Default Settings: > --precision 4 > > User Settings: > --measure lesk > > UMLS-Interface Configuration Information: > (Default Information - no config file) > > Sources (SAB): > MSH > Relations (REL): > PAR > CHD > > Sources (SABDEF): > UMLS_ALL > Relations (RELDEF): > UMLS_ALL > > > 64.0000<>C0633633(substance P (5-11), > cyclo(11-5(epsilon))Lys(5)-)<>C1311834(2-methyl-3(2-pyridyl-methyl)-3H-pyrido-(2,3-D)-pyrimidin-4-on > dihydrochloride) > > -------------------------------------------------------------------------------------------------- > Success! > > Test Query 2 > > -------------------------------------------------------------------------------------------------- > C:\NLP>umls-similarity.pl headache pain > Default Settings: > --precision 4 > --measure path > > User Settings: > No user defined settings > > UMLS-Interface Configuration Information: > (Default Information - no config file) > > Sources (SAB): > MSH > Relations (REL): > PAR > CHD > > Sources (SABDEF): > UMLS_ALL > Relations (RELDEF): > UMLS_ALL > > > You have requested path information about a concept. In order to obtain > this information we need to create an > index or resubmit this command using --realtime. Creating an index can be > very time-consuming, but once it is built your commands will run faster > than with --realtime. > > Do you want to continue with index creation (y/n)y > > -------------------------------------------------------------------------------------------------- > still running... > > > -- Ted Pedersen http://www.d.umn.edu/~tpederse
