thank you very much!!I have find the reason, when i run the umls-similarity.pl,
I have give a parameter -realtime.this is the result i calculate,when i don't
give this parameter, it is correct.I don't known what make this diffirence
with the help of albert, i solve the 'create-icfrequence.t fail' problem,
thanks!
On Thursday, December 17, 2015 12:10 AM, "Bridget McInnes
btmcin...@gmail.com [umls-similarity]" <umls-similarity@yahoogroups.com> wrote:
Hello,
it repoerts "create-icfrequency.t fail", and says 'Could not open outputfile
t/output/create-icfrequency.output'.
For this, do you have write privileges to the t/output directory? This may be
the problem although I am not completely certain.
The lin similarity between C0026769 (disseminated sclerosis) and C0027651
(neoplasms) is 1.26907718115276.
For this, I have UMLS-Similarity installed on centos although running with the
2014AB version of the UMLS. I get the following:
$ umls-similarity.pl --measure lin C0026769 C0027651
Default Settings:
--precision 4
User Settings:
--measure lin
UMLS-Interface Configuration Information:
(Default Information - no config file)
Sources (SAB):
MSH
Relations (REL):
PAR
CHD
Sources (SABDEF):
UMLS_ALL
Relations (RELDEF):
UMLS_ALL
Setting default propagation file (lin)
0.3331<>C0026769(multiples sclerosis)<>C0027651(Neoplasms NOS)
Would you send me a screen shot of your run like you did for the t/output
directory problem? I am not certain why you are getting such a number.
Thank you!
Best regards,
Bridget
On Wed, Dec 16, 2015 at 7:39 AM, zhihui luo luozh...@yahoo.com
[umls-similarity] <umls-similarity@yahoogroups.com> wrote:
[Attachment(s) from zhihui luo included below] hi every group member:
I am doing some research in drug discovery. Recently I install the
UMLS::Similarity in my linux machine(Centos). but when I input 'make test' in
the install process(I had finished installed the UMLS::Interaction), it
repoerts "create-icfrequency.t fail", and says 'Could not open outputfile
t/output/create-icfrequency.output'. I don't known what's wrong with it(detail
information is in the below picture). but lt still can run. I need to
calculate the similarity of two concepts with 'lin'. The lin similarity
between C0026769 (disseminated sclerosis) and C0027651 (neoplasms) is
1.26907718115276. this value is certain wrong. it should be 0.3321 But
in another pair: The lin similarity between C0036341 (schizophrenia) and
C0033975 (psychotic dis) is 0.909861206496316 this value is right,
really strange!
I need to calculate a large set of data, can anybody help me solve this
problem. thanks!!!
my config: sab: MSHrel: PAR, CHDand i use both 2013AA and 2015AA version,
result of the 'lin' similarity is the same.
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