issue #70 - made script to upload release data

generate_transcript_data/github_release_upload.sh

@@ -0,0 +1,36 @@
+#!/bin/bash
+
+set -e
+
+if [[ -z ${CDOT_DATA_DIR} ]]; then
+  echo "You need to set environment variable CDOT_DATA_DIR, pointing to where you ran 'all_transcripts.sh'"
+  exit 1
+fi
+
+FULL_PATH_TO_SCRIPT="$(realpath "${BASH_SOURCE[-1]}")"
+BASE_DIR=$(dirname ${FULL_PATH_TO_SCRIPT})
+
+# Python scripts will import via generate_transcript_data
+export PYTHONPATH=${BASE_DIR}/..
+
+CDOT_DATA_VERSION=$(${BASE_DIR}/cdot_json.py --version)
+
+CDOT_RELEASE_NAME=data_v${CDOT_DATA_VERSION}
+echo "For the rest of the script to work, it assumes you have tagged + pushed a data release of ${CDOT_DATA_VERSION}"
+echo "then run: gh release create ${CDOT_RELEASE_NAME} --title=${CDOT_RELEASE_NAME} --notes 'release notes...'"
+
+gh release upload ${CDOT_RELEASE_NAME} \
+  ${CDOT_DATA_DIR}/ensembl/GRCh37/cdot-${CDOT_DATA_VERSION}.ensembl.grch37.json.gz \
+  ${CDOT_DATA_DIR}/ensembl/GRCh37/cdot-${CDOT_DATA_VERSION}.ensembl.Homo_sapiens.GRCh37.87.gff3.json.gz \
+  ${CDOT_DATA_DIR}/ensembl/GRCh38/cdot-${CDOT_DATA_VERSION}.ensembl.grch38.json.gz \
+  ${CDOT_DATA_DIR}/ensembl/GRCh38/cdot-${CDOT_DATA_VERSION}.ensembl.Homo_sapiens.GRCh38.110.gff3.json.gz \
+  ${CDOT_DATA_DIR}/ensembl/GRCh38/cdot-${CDOT_DATA_VERSION}.ensembl.Homo_sapiens.GRCh38.111.gff3.json.gz \
+  ${CDOT_DATA_DIR}/ensembl/T2T-CHM13v2.0/cdot-${CDOT_DATA_VERSION}.ensembl.T2T-CHM13v2.0.json.gz \
+  ${CDOT_DATA_DIR}/refseq/GRCh37/cdot-${CDOT_DATA_VERSION}.refseq.grch37.json.gz \
+  ${CDOT_DATA_DIR}/refseq/GRCh37/cdot-${CDOT_DATA_VERSION}.GCF_000001405.25_GRCh37.p13_genomic.105.20201022.gff.json.gz \
+  ${CDOT_DATA_DIR}/refseq/GRCh37/cdot-${CDOT_DATA_VERSION}.GCF_000001405.25_GRCh37.p13_genomic.105.20220307.gff.json.gz \
+  ${CDOT_DATA_DIR}/refseq/GRCh38/cdot-${CDOT_DATA_VERSION}.refseq.grch38.json.gz \
+  ${CDOT_DATA_DIR}/refseq/GRCh38/cdot-${CDOT_DATA_VERSION}.GCF_000001405.40_GRCh38.p14_genomic.110.gff.json.gz \
+  ${CDOT_DATA_DIR}/refseq/GRCh38/cdot-${CDOT_DATA_VERSION}.GCF_000001405.40_GRCh38.p14_genomic.RS_2023_10.gff.json.gz \
+  ${CDOT_DATA_DIR}/refseq/T2T-CHM13v2.0/cdot-${CDOT_DATA_VERSION}.refseq.T2T-CHM13v2.0.json.gz
+