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This leads to significant problems with Semantic Scholar analysis. See #292

olegs

Division by zero

4

To reproduce use predefined "brain computer interface" search from Pubmed. ``` [2021-10-14 08:34:35,747: INFO/ForkPoolWorker-1] Generating evolution topics descriptions [2021-10-14 08:34:35,833: WARNING/ForkPoolWorker-1] /home/user/pysrc/papers/analysis/topics.py:116: RuntimeWarning: invalid value encountered in true_divide tokens_freqs_per_comp =...

olegs

Steps to reproduce: 1. Run paper analysis for doi=10.1063/5.0021420 2. Explore related papers 3. Open network view for the similarity graph Papers from cluster 2 are all hidden by the...

ctrltz

Extract review generation functionality as a separate micro service

1

olegs

Loading bibliographic coupling takes too long for 1k papers in Semantic Scholar

1

26 mins for request: https://pubtrends.net/result?query=programming%20languages%20theory&source=Semantic%20Scholar&limit=1000&sort=Most%20Cited&noreviews=False&expand=0&jobid=predefined_38f03d8fe1ce0f5b5dbb1cc63a67a22a ``` [2021-07-20 17:08:22] Analyzing search query [2021-07-20 17:08:22] Searching 1000 most cited publications matching programming languages theory [2021-07-20 17:09:03] Loading publication data [2021-07-20 17:09:05] Analyzing...

olegs

Reproduce query: "Fernando Pessoa" in Pubmed. ``` [2021-07-21 22:45:45,279: ERROR/ForkPoolWorker-2] Task analyze_search_terms[109015cd-84de-4ba2-8aac-e9e9dfd20042] raised unexpected: ValueError('Out of range float values are not JSON compliant') Traceback (most recent call last): File "/home/user/miniconda3/envs/pubtrends/lib/python3.8/site-packages/celery/app/trace.py",...

olegs

Top cited papers plot is incorrect after switching to Bokeh 2.3.2

3

olegs

Parser bug in filenames

1

Filename prefix changed from `pubmed20n` to `pubmed21n` and parser fails. In general, I think it depends from current year.

RuslanOm

Check for nescessary permissions on start ``` --- Logging error --- Traceback (most recent call last): File "/home/student/pubtrends-0.15.962/pysrc/app/app.py", line 147, in result save_predefined(viz, data, log, jobid) File "/home/student/pubtrends-0.15.962/pysrc/app/predefined.py", line 34,...

olegs

``` [2021-04-13 13:20:56,488: INFO/ForkPoolWorker-2] Searching 100000 most cited publications matching COVID-19, Coronavirus, "Corona virus", 2019-nCoV, SARS-CoV, MERS-CoV, "Severe Acute Respiratory Syndrome", "Middle East Respiratory Syndrome" [2021-04-13 13:20:56,489: INFO/ForkPoolWorker-2] Preferring non...

olegs