From 202fddae7c5a1c016be706d4cb8fa2447d43a71d Mon Sep 17 00:00:00 2001 From: James Stevenson Date: Wed, 13 Nov 2024 12:36:34 -0500 Subject: [PATCH] fix files --- docs/make.bat | 68 ++++++++++---------- tests/data/omim/omim_20240806.tsv | 38 +++++------ tests/data/oncotree/oncotree_2021-11-02.json | 2 +- 3 files changed, 54 insertions(+), 54 deletions(-) diff --git a/docs/make.bat b/docs/make.bat index 7d65db30..dc1312ab 100644 --- a/docs/make.bat +++ b/docs/make.bat @@ -1,35 +1,35 @@ -@ECHO OFF - -pushd %~dp0 - -REM Command file for Sphinx documentation - -if "%SPHINXBUILD%" == "" ( - set SPHINXBUILD=sphinx-build -) -set SOURCEDIR=source -set BUILDDIR=build - -%SPHINXBUILD% >NUL 2>NUL -if errorlevel 9009 ( - echo. - echo.The 'sphinx-build' command was not found. Make sure you have Sphinx - echo.installed, then set the SPHINXBUILD environment variable to point - echo.to the full path of the 'sphinx-build' executable. 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Alternatively you + echo.may add the Sphinx directory to PATH. + echo. + echo.If you don't have Sphinx installed, grab it from + echo.https://www.sphinx-doc.org/ + exit /b 1 +) + +if "%1" == "" goto help + +%SPHINXBUILD% -M %1 %SOURCEDIR% %BUILDDIR% %SPHINXOPTS% %O% +goto end + +:help +%SPHINXBUILD% -M help %SOURCEDIR% %BUILDDIR% %SPHINXOPTS% %O% + +:end popd diff --git a/tests/data/omim/omim_20240806.tsv b/tests/data/omim/omim_20240806.tsv index 3b1dfea2..fffeaf1a 100644 --- a/tests/data/omim/omim_20240806.tsv +++ b/tests/data/omim/omim_20240806.tsv @@ -1,19 +1,19 @@ -# Copyright (c) 1966-2024 Johns Hopkins University. Use of this file adheres to the terms specified at https://omim.org/help/agreement -# Generated: 2024-08-05 -# Prefix MIM Number Preferred Title; symbol Alternative Title(s); symbol(s) Included Title(s); symbols -NULL 247640 LYMPHOBLASTIC LEUKEMIA, ACUTE, WITH LYMPHOMATOUS FEATURES; LALL LYMPHOMATOUS ALL -Percent 309200 MAJOR AFFECTIVE DISORDER 2; MAFD2 MANIC-DEPRESSIVE ILLNESS; MDI;; MANIC-DEPRESSIVE PSYCHOSIS, X-LINKED; MDX;; BIPOLAR AFFECTIVE DISORDER; BPAD -Percent 613065 LEUKEMIA, ACUTE LYMPHOBLASTIC; ALL LEUKEMIA, ACUTE LYMPHOBLASTIC, SUSCEPTIBILITY TO, 1, INCLUDED;; ALL1, INCLUDED;; LEUKEMIA, ACUTE LYMPHOCYTIC, SUSCEPTIBILITY TO, 1, INCLUDED;; LEUKEMIA, B-CELL ACUTE LYMPHOBLASTIC, SUSCEPTIBILITY TO, INCLUDED;; LEUKEMIA, T-CELL ACUTE LYMPHOBLASTIC, SUSCEPTIBILITY TO, INCLUDED;; LEUKEMIA, ACUTE LYMPHOBLASTIC, B-HYPERDIPLOID, SUSCEPTIBILITY TO, INCLUDED -# -# -# -# -# MIM number prefix: -# ------------------ -# Asterisk (*) Gene -# Plus (+) Gene and phenotype, combined -# Number Sign (#) Phenotype, molecular basis known -# Percent (%) Phenotype or locus, molecular basis unknown -# NULL () Other, mainly phenotypes with suspected mendelian basis -# Caret (^) Entry has been removed from the database or moved to another entry -# +# Copyright (c) 1966-2024 Johns Hopkins University. Use of this file adheres to the terms specified at https://omim.org/help/agreement +# Generated: 2024-08-05 +# Prefix MIM Number Preferred Title; symbol Alternative Title(s); symbol(s) Included Title(s); symbols +NULL 247640 LYMPHOBLASTIC LEUKEMIA, ACUTE, WITH LYMPHOMATOUS FEATURES; LALL LYMPHOMATOUS ALL +Percent 309200 MAJOR AFFECTIVE DISORDER 2; MAFD2 MANIC-DEPRESSIVE ILLNESS; MDI;; MANIC-DEPRESSIVE PSYCHOSIS, X-LINKED; MDX;; BIPOLAR AFFECTIVE DISORDER; BPAD +Percent 613065 LEUKEMIA, ACUTE LYMPHOBLASTIC; ALL LEUKEMIA, ACUTE LYMPHOBLASTIC, SUSCEPTIBILITY TO, 1, INCLUDED;; ALL1, INCLUDED;; LEUKEMIA, ACUTE LYMPHOCYTIC, SUSCEPTIBILITY TO, 1, INCLUDED;; LEUKEMIA, B-CELL ACUTE LYMPHOBLASTIC, SUSCEPTIBILITY TO, INCLUDED;; LEUKEMIA, T-CELL ACUTE LYMPHOBLASTIC, SUSCEPTIBILITY TO, INCLUDED;; LEUKEMIA, ACUTE LYMPHOBLASTIC, B-HYPERDIPLOID, SUSCEPTIBILITY TO, INCLUDED +# +# +# +# +# MIM number prefix: +# ------------------ +# Asterisk (*) Gene +# Plus (+) Gene and phenotype, combined +# Number 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