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) <#151ab1a899b23080_TopText> 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: MSH
> rel: PAR, CHD
> and i use both 2013AA and 2015AA version, result of the 'lin' similarity
> is the same.
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> [image: Inline image]
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