Ricardo Avila ravila4

## gpt_completions.sh
#!/bin/bash

set -euo pipefail

# This script sends a request to the OpenAI completions endpoint and parses the output using jq.
# It is recommended that the API key is stored in an environment variable.

usage() {
  echo "Usage: $0 [-k OPENAI_API_KEY] [-m MODEL] [-t MAX_TOKENS] PROMPT"
  echo "Example: $0 -m text-davinci-002 -t 500 \"What is the capital of France?\""

## config.py
"""Web config to run MyGeneset API on GitHub Actions"""
import os


ES_INDEX = 'user_genesets'

COOKIE_SECRET = "JKA#9%Wc4ofuqM@C!&yLFsYE"

# ORCID keys
ORCID_CLIENT_ID = os.environ['ORCID_CLIENT_ID']

## databricks-programming-guide.md

      
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                ravila4
                / databricks-programming-guide.md
            
            
              Created
              January 27, 2020 15:40
            
              
                Databricks Programming Guidance
              
          
    Databricks Programming Guidance

This document contains lessons learned with regard to Databricks programming, but also contains some best practices
Mapping to a Azure Data Lake Generation 2

blobname = "miraw"  
storageaccount = "rdmidlgen2"  
mountname = "/rdmi"

configs = {"fs.azure.account.auth.type": "OAuth",

  
## utility.py
# Utility script for feature generation
# Md Mahmudulla Hassan
# The University of Texas at El Paso
# Last Modified: 12/19/2018

import os
from rdkit import Chem
from rdkit.Chem import AllChem
import tempfile
import shutil

## Pharos_MySQL_connect.ipynb

      
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                / Pharos_MySQL_connect.ipynb
            
            
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              May 11, 2022 23:49
            
              
                Connecting to the Pharos MySQL database with Python
              
          
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## ROC.ipynb

      
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                ravila4
                / ROC.ipynb
            
            
              Created
              April 10, 2018 03:32
            
              
                Notebook for ROC/AUC and enrichment factor analysis
              
          
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## count_taxids.sh
#!/bin/bash

# Genesets aggregated by taxid
aggs=`curl -s "https://mygeneset.info/v1/query?q=*&facets=taxid&facet_size=100"`
taxids=`echo $aggs | jq -r '.facets.taxid.terms | map(.term) | @csv'`
counts=`echo $aggs | jq -r '.facets.taxid.terms | map(.count) | @csv'`

# Query scientific name for each taxid
resp=`curl -s -X POST -d "q=${taxids}" "http://t.biothings.io/v1/query"`
species=`echo $resp | jq -r 'map(.scientific_name) | @csv'`

## gist:9aacae443c50a168b4267fca7448d88b
#!/usr/bin/env bash

set -Eeuo pipefail

cd "$(dirname "${BASH_SOURCE[0]}")" >/dev/null 2>&1

trap cleanup SIGINT SIGTERM ERR EXIT

usage() {
  cat <<EOF

## id_mapping_mygene.ipynb

      
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                / id_mapping_mygene.ipynb
            
            
              Created
              November 16, 2020 16:04
                — forked from newgene/id_mapping_mygene.ipynb
            
          
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## ORA_docking_results.ipynb

      
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                / ORA_docking_results.ipynb
            
            
              Created
              April 29, 2018 16:39
            
              
                Orexin docking results
              
          
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	#!/bin/bash

	set -euo pipefail

	# This script sends a request to the OpenAI completions endpoint and parses the output using jq.
	# It is recommended that the API key is stored in an environment variable.

	usage() {
	echo "Usage: $0 [-k OPENAI_API_KEY] [-m MODEL] [-t MAX_TOKENS] PROMPT"
	echo "Example: $0 -m text-davinci-002 -t 500 \"What is the capital of France?\""
	"""Web config to run MyGeneset API on GitHub Actions"""
	import os


	ES_INDEX = 'user_genesets'

	COOKIE_SECRET = "JKA#9%Wc4ofuqM@C!&yLFsYE"

	# ORCID keys
	ORCID_CLIENT_ID = os.environ['ORCID_CLIENT_ID']
	# Utility script for feature generation
	# Md Mahmudulla Hassan
	# The University of Texas at El Paso
	# Last Modified: 12/19/2018

	import os
	from rdkit import Chem
	from rdkit.Chem import AllChem
	import tempfile
	import shutil
	#!/bin/bash

	# Genesets aggregated by taxid
	aggs=`curl -s "https://mygeneset.info/v1/query?q=*&facets=taxid&facet_size=100"`
	taxids=`echo $aggs \| jq -r '.facets.taxid.terms \| map(.term) \| @csv'`
	counts=`echo $aggs \| jq -r '.facets.taxid.terms \| map(.count) \| @csv'`

	# Query scientific name for each taxid
	resp=`curl -s -X POST -d "q=${taxids}" "http://t.biothings.io/v1/query"`
	species=`echo $resp \| jq -r 'map(.scientific_name) \| @csv'`
	#!/usr/bin/env bash

	set -Eeuo pipefail

	cd "$(dirname "${BASH_SOURCE[0]}")" >/dev/null 2>&1

	trap cleanup SIGINT SIGTERM ERR EXIT

	usage() {
	cat <<EOF