jsstevenson

[

    {
        "class": "sidebar_container",
        // $base02:    #839496
        "layer0.tint": [131,148,150],
        "layer0.opacity": 1.0,
        "layer0.draw_center": false,
        "layer0.inner_margin": [0, 0, 1.5, 0],
        "content_margin": [0, 0, 1, 0]

jsstevenson

import java.io.*;
import java.util.*;

public class MathTables {
    public static void main(String[] args) throws FileNotFoundException{

        Scanner input;
        input = new Scanner(new File("500names.txt")).useDelimiter("\\n");

        for (int i = 1; i <= 8; i++) {

jsstevenson

class NormalizationService(BaseModel):
    query: str
    warnings: Optional[Dict]
    match_type: MatchType
    record: Optional[MergedMatch]
    meta_: NormalizationMeta
    
class NormalizationMeta(BaseModel):    
    Sources: Optional[List[SourceMeta]],
    # either

jsstevenson

[2021-02-24 09:46:35,622] ERROR : generate_merged_record could not retrieve record for ncit:C3134 in {'mondo:0007547', 'ncit:C3134'}
[2021-02-24 09:46:35,814] ERROR : generate_merged_record could not retrieve record for ncit:C39594 in {'DOID:0050486', 'ncit:C39594', 'mondo:0006547'}
[2021-02-24 09:46:38,084] ERROR : generate_merged_record could not retrieve record for ncit:C35463 in {'ncit:C35463', 'mondo:0006410'}
[2021-02-24 09:46:38,579] ERROR : generate_merged_record could not retrieve record for ncit:C35530 in {'mondo:0002249', 'ncit:C35530', 'DOID:2228'}
[2021-02-24 09:46:40,443] ERROR : generate_merged_record could not retrieve record for ncit:C98923 in {'ncit:C98923', 'mondo:0019759'}
[2021-02-24 09:46:40,896] ERROR : generate_merged_record could not retrieve record for ncit:C34440 in {'DOID:12129', 'ncit:C34440', 'mondo:0005452'}
[2021-02-24 09:46:41,279] ERROR : generate_merged_record could not retrieve record for ncit:C34525 in {'DOID:8725', 'ncit:C34525', 'mondo:0004648'}
[2021-02-24 09:46:42,275]

jsstevenson

{
  "query": "leukemia",
  "value_object_descriptor": {
    "id": "normalize:leukemia",
    "type": "DiseaseDescriptor",
    "value": {
      "type": "Disease",
      "disease_id": "ncit:C3161"
    },
    "label": "Leukemia",

jsstevenson

Installing 'disease'
$ ['/home/runner/.local/share/virtualenvs/disease-normalization-8woWQCgP/bin/pip', 'install', '--verbose', '--upgrade', '--no-deps', '--exists-action=i', '-r', '/tmp/pipenv-s4bq127h-requirements/pipenv-w6lzd_to-requirement.txt', '-i', 'https://pypi.org/simple']
Using source directory: '/home/runner/.local/share/virtualenvs/disease-normalization-8woWQCgP/src'
Using pip 21.0.1 from /home/runner/.local/share/virtualenvs/disease-normalization-8woWQCgP/lib/python3.8/site-packages/pip (python 3.8)
Non-user install by explicit request
Created temporary directory: /tmp/pip-ephem-wheel-cache-ttkklpp3
Created temporary directory: /tmp/pip-req-tracker-xa3ram68
Initialized build tracking at /tmp/pip-req-tracker-xa3ram68
Created build tracker: /tmp/pip-req-tracker-xa3ram68
Entered build tracker: /tmp/pip-req-tracker-xa3ram68

jsstevenson

[2021-04-07 09:49:50,948] WARNING : variant-normalizer does not support moa:vid1.
[2021-04-07 09:49:50,948] WARNING : Variant BCR--ABL1 Fusion could not be found in variant normalizer.
[2021-04-07 09:49:51,027] WARNING : variant-normalizer does not support moa:vid2.
[2021-04-07 09:49:51,027] WARNING : Variant BCR--ABL1 Fusion could not be found in variant normalizer.
[2021-04-07 09:49:51,091] WARNING : variant-normalizer does not support moa:vid3.
[2021-04-07 09:49:51,091] WARNING : Variant BCR--ABL1 Fusion could not be found in variant normalizer.
[2021-04-07 09:49:51,155] WARNING : variant-normalizer does not support moa:vid4.
[2021-04-07 09:49:51,155] WARNING : Variant BCR--ABL1 Fusion could not be found in variant normalizer.
[2021-04-07 09:49:51,221] WARNING : variant-normalizer does not support moa:vid5.
[2021-04-07 09:49:51,221] WARNING : Variant BCR--ABL1 Fusion could not be found in variant normalizer.

jsstevenson

TALL and T-Cell Acute Lymphoid Leukemia, 6
T-Cell Acute Lymphoid Leukemia, 6

jsstevenson

     5 [2021-04-21 08:41:52,076] WARNING : Normalization of condition id: 672 , Thrombocytopenia in liver disease, failed.
     6 [2021-04-21 08:41:55,704] WARNING : Normalization of condition id: 46090 , CNS cancer, failed.
     7 [2021-04-21 08:41:55,899] WARNING : Normalization of condition id: 587 , Cutaneous basal cell carcinoma, failed.
     8 [2021-04-21 08:42:01,069] WARNING : Normalization of condition id: 46076 , Gastrointestinal cancer, failed.
     9 [2021-04-21 08:42:02,548] WARNING : Normalization of condition id: 682 , Waldenstroem macroglobulinemia, failed.
    10 [2021-04-21 08:42:04,615] WARNING : Normalization of condition id: 46090 , CNS cancer, failed.
    11 [2021-04-21 08:42:04,771] WARNING : Normalization of condition id: 672 , Thrombocytopenia in liver disease, failed.
    12 [2021-04-21 08:42:08,360] WARNING : Normalization of condition id: 25309 , Non-small cell lung cancer Nonsquamous, failed.
    13 [2021-04-21 08:42:08,377] WARNING : Normalization of condition id: 25316 , Non-sma

jsstevenson

{
    "query": "rxcui:2555",
    "warnings": null,
    "match_type": 100,
    "value_object_descriptor": {
        "id": "normalize.therapy:rxcui%3A2555",
        "type": "TherapyDescriptor",
        "value": {
            "type": "Therapy",
            "id": "rxcui:2555"