Thank you for quick reply. I was at line 421 of this document https://metacpan.org/source/BTMCINNES/UMLS-Interface-1.51/INSTALL I ran `bash populate_mysql_db.sh` in the META/ directory and got this error message `populate_mysql_db.sh: line 45: mysql_tables.sql: No such file or directory`
Thanks, Hong On Mon, Sep 30, 2019 at 8:40 PM Bridget McInnes [email protected] [umls-similarity] <[email protected]> wrote: > > > Hello Hong, > > I am not Ted either. Would you provide a little more information: what > directory are you in? > > Best regards, > > Bridget > > On Mon, Sep 23, 2019 at 9:46 PM Hong Guan [email protected] > [umls-similarity] <[email protected]> wrote: > >> >> >> This line >> $MYSQL_HOME/bin/mysql -u $user -p$password $db_name < mysql_tables.sql >> >> mysql.log 2>&1 >> reads the mysql_tables.sql, but I don't see it. >> >> Thanks, >> Hong >> >> On Mon, Sep 23, 2019 at 2:03 PM Juliana M Destro [email protected] >> [umls-similarity] <[email protected]> wrote: >> >>> >>> >>> I'm not Ted but I think I can help you :-) >>> >>> You can get the load scripts in UMLS page: >>> >>> https://www.nlm.nih.gov/research/umls/implementation_resources/scripts/index.html >>> >>> On Mon, Sep 23, 2019 at 5:17 PM Hong Guan [email protected] >>> [umls-similarity] <[email protected]> wrote: >>> >>>> >>>> >>>> Hi Ted, >>>> >>>> I am stuck at Stage 5 Step 3 C. When I ran ./populate_mysql_db.sh, I >>>> got an error message saying "populate_mysql_db.sh: line 45: >>>> mysql_tables.sql: No such file or directory". I don't see mysql_tables..sql >>>> in the UMLS/ directory and its sub-directories. What should I do? >>>> >>>> Thanks, >>>> Hong >>>> >>>> On Tue, Sep 17, 2019 at 2:13 PM Ted Pedersen [email protected] >>>> [umls-similarity] <[email protected]> wrote: >>>> >>>>> >>>>> >>>>> >>>>> It looks like some Perl modules are missing. These instructions will >>>>> help install those! >>>>> >>>>> https://metacpan.org/source/BTMCINNES/UMLS-Interface-1.51/INSTALL >>>>> >>>>> On Tue, Sep 17, 2019 at 2:36 PM Hong Guan [email protected] >>>>> [umls-similarity] <[email protected]> wrote: >>>>> >>>>>> >>>>>> >>>>>> I install UMLS and MySQL 5.7. The error prompt says >>>>>> >>>>>> Warning: prerequisite DBD::mysql 0 not found. >>>>>>> Warning: prerequisite DBI 0 not found. >>>>>>> Warning: prerequisite Digest::SHA1 2.12 not found. >>>>>>> Generating a Unix-style Makefile >>>>>>> Writing Makefile for UMLS::Interface >>>>>>> Writing MYMETA.yml and MYMETA.json >>>>>> >>>>>> >>>>>> Looks like it recognizes UMLS but not MySQL. What do I do now? >>>>>> >>>>>> Thanks, >>>>>> >>>>>> On Mon, Sep 16, 2019 at 11:04 AM Ted Pedersen [email protected] >>>>>> [umls-similarity] <[email protected]> wrote: >>>>>> >>>>>>> >>>>>>> >>>>>>> The National Library of Medicine has some pretty good instructions >>>>>>> on how to install UMLS. >>>>>>> >>>>>>> https://www..nlm.nih.gov/research/umls/quickstart.html >>>>>>> <https://www.nlm.nih.gov/research/umls/quickstart.html> >>>>>>> >>>>>>> On Mon, Sep 16, 2019 at 1:00 PM [email protected] [umls-similarity] < >>>>>>> [email protected]> wrote: >>>>>>> >>>>>>>> >>>>>>>> >>>>>>>> I am new to this package. Can anyone tell me how I >>>>>>>> install UMLS-Similarity from scratch? The system I am using is Ubuntu >>>>>>>> 18.04. >>>>>>>> >>>>>>>> It seems that I need to install UMLS and MySQL before installing >>>>>>>> UMLS-Similarity. Am I correct? If that is the case, how do I install >>>>>>>> UMLS? >>>>>>>> I do know how to install MySQL. >>>>>>>> >>>>>>>> >>>>>> >>>>>> -- >>>>>> >>>>>> Hong Guan >>>>>> >>>>>> Research Assistant, Biomedical Informatics >>>>>> >>>>>> College of Health Solutions >>>>>> >>>>>> Arizona State University >>>>>> >>>>>> >>>> >>>> -- >>>> >>>> Hong Guan, MS >>>> >>>> Doctoral Student, Research Assistant >>>> College of Health Solutions, Arizona State University >>>> >>>> >> >> -- >> >> Hong Guan, MS >> >> Doctoral Student, Research Assistant >> College of Health Solutions, Arizona State University >> >> > -- Hong Guan, MS Doctoral Student, Research Assistant College of Health Solutions, Arizona State University
