pubtrends
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JetBrains-Research
Scientific literature explorer. Runs a Pubmed or Semantic Scholar search and allows user to explore high-level structure of result papers
I'm writing literature review on the application of transfer learning for protein-protein interaction study - pubtrends would be very helpful.
Error during Semantic Scholar materialized view creation. ``` 2023-04-04 08:57:31.658 UTC [710] WARNING: autovacuum worker took too long to start; canceled 2023-04-04 08:57:43.451 UTC [706] LOG: checkpoint starting: time 2023-04-04...
``` Error Illegal sort method: Наиболее цитируемые We're working on it. Please check back soon. ```
To avoid 100% CPU utilization and request timeout producing.
``` [2023-02-21 19:33:37,326: ERROR/ForkPoolWorker-9] Task analyze_search_terms[b619861e-69c9-4117-adc4-199bd31ee25e] raised unexpected: AttributeError("'NoneType' object has no attribute 'lower'") Traceback (most recent call last): File "/home/user/miniconda3/envs/pubtrends/lib/python3.10/site-packages/celery/app/trace.py", line 385, in trace_task R = retval = fun(*args,...
``` [2022-11-28 10:57:25,169: INFO/MainProcess] Received task: analyze_search_terms[30d0576d-e220-4a5a-9428-3b402a1933da] [2022-11-28 10:57:25,171: INFO/ForkPoolWorker-1] Analyzing search query [2022-11-28 10:57:25,172: INFO/ForkPoolWorker-1] Searching 1000 most cited publications matching rat scenic [2022-11-28 10:57:39,225: WARNING/ForkPoolWorker-3] /home/user/pysrc/papers/analyzer.py:228: PerformanceWarning: DataFrame...
``` [2022-11-30 08:24:51,804: INFO/MainProcess] Received task: analyze_search_terms[14fe8823-b764-45ca-8e00-1a1ab5a7643a] [2022-11-30 08:24:51,806: INFO/ForkPoolWorker-3] Analyzing search query [2022-11-30 08:24:51,807: INFO/ForkPoolWorker-3] Searching 1000 most cited publications matching rat scenic [2022-11-30 08:24:53,956: INFO/ForkPoolWorker-3] Found 2 publications...
Update Pubmed publications using commandline: ``` java -cp pubtrends-0.21.1300.jar org.jetbrains.bio.pubtrends.pm.PubmedLoader --fillDatabase | tee -a crontab_update.log ``` Update material view fails. ``` 2022-10-14 08:03:04,847 INFO [main] o.j.b.p.d.PubmedPostgresWriter [PubmedPostgresWriter.kt:188] Update material view...
When clicking on the word "epigenetic", work "showed" is actually processed. Also the lowest words "decease" and "effective" are not processed at all. Reproducible in Google Chrome, works fine in...
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Scientific literature explorer. Runs a Pubmed or Semantic Scholar search and allows user to explore high-level structure of result papers