Skip to content

Instantly share code, notes, and snippets.

View stain's full-sized avatar

Stian Soiland-Reyes stain

167 followers · 13 following
View GitHub Profile
@stain
stain / urldecoder.py
Last active July 13, 2023 09:45
#!/usr/bin/env python
__author__ = 'Eric Van Cleve, Stian Soiland-Reyes'
__copyright__ = 'Copyright 2019, Proofpoint Inc, 2023 The Universit of Manchester'
__license__ = 'GPL v.3'
__version__ = '3.1-rewriter'
__email__ = 'evancleve@proofpoint.com'
__status__ = 'Production'
## PROMINENT NOTICE:
# This script was modified 2023-07-13 by Stian Soiland-Reyes, The University of Manchester, UK
@stain
stain / 6604.provn
Last active June 29, 2023 08:44
Converting INTEGRAL DAG to PROVN
document
default <http://example.com/run/123123/>
used(analysis-LCEnergyBins-7b7a5d9c-f493-59cd-955b-fff6c22eb961, None, -)
used(analysis-ScWData-1db23960-cc7f-5870-8bc3-291178cee01c, c851f1e7-2551-5da5-b9ca-7e23775c2f1c, -)
used(analysis-IBIS_ICRoot-06661d84-b2c2-57c0-9adb-c0447d7031f0, analysis-ICRoot-7b7a5d9c-f493-59cd-955b-fff6c22eb961, -)
used(analysis-ICRoot-7b7a5d9c-f493-59cd-955b-fff6c22eb961, None, -)
used(analysis-GBcat-8f868fbb-fd81-5b5e-95f5-0d4ed55334d4, list-305c4589-a8ad-57a6-a946-8694e81bc22f, -)
used(analysis-GRcat-43383b87-35f4-547e-86a5-d6c92229876c, analysis-SourceCatalog-7b7a5d9c-f493-59cd-955b-fff6c22eb961, -)
used(analysis-CatForSpectra-43383b87-35f4-547e-86a5-d6c92229876c, analysis-SourceCatalog-7b7a5d9c-f493-59cd-955b-fff6c22eb961, -)
@stain
stain / ro-crate-metadata.json
Last active October 11, 2022 12:51
RO-Crate variant of https://github.com/BioSchemas/specifications/discussions/579
{
"@context": "https://w3id.org/ro/crate/1.1/context",
"@graph": [
{
"@type": "CreativeWork",
"@id": "ro-crate-metadata.json",
"conformsTo": {"@id": "https://w3id.org/ro/crate/1.1"},
"about": {"@id": "https://disprot.org/#2021-08"}
},
{
@stain
stain / docs-to-markdown-test.md
Created February 9, 2022 10:06
converted from https://docs.google.com/document/d/1U2KAlbKviCu-fCX-znncKIBUIUUOeEnuRGdAg-fNd4Q/edit# using Docs to Markdown Google docs addon

>>>>> gd2md-html alert: ERRORs: 1; WARNINGs: 1; ALERTS: 13.

  • See top comment block for details on ERRORs and WARNINGs.
  • In the converted Markdown or HTML, search for inline alerts that start with >>>>> gd2md-html alert: for specific instances that need correction.
@stain
stain / ro-crate-preview.html
Created September 29, 2021 09:22
<!DOCTYPE html>
<html>
<head>
<title>Protein MD Setup HPC tutorial using BioExcel Building Blocks (biobb) in PyCOMPSs</title>
<script type="application/ld+json">{
"@context": "https://w3id.org/ro/crate/1.1/context",
"@graph": [
{
"@id": "ro-crate-metadata.json",
"@type": "CreativeWork",
@stain
stain / foo.jsonld
Created April 26, 2021 17:51
{
"@context": "http://schema.org/",
"@graph": [
{
"id": "_:b0",
"type": "FormalParameter",
"name": "BDD_Kakila_v2_20210221_taxon.tsv"
},
{
"id": "_:b1",
@stain
stain / ro-crate-metadata.json
Last active April 23, 2021 14:08
{
"@context": "https://w3id.org/ro/crate/1.0/context",
"@graph": [
{
"@id": "ro-crate-metadata.json",
"@type": "CreativeWork",
"conformsTo": {
"@id": "https://w3id.org/ro/crate/1.1"
},
"about": {
@stain
stain / ro-crate-metadata.json
Created April 14, 2021 12:49
{
"@context": "https://w3id.org/ro/crate/1.1/context",
"@graph": [
{
"@id": "ro-crate-metadata.json",
"@type": "CreativeWork",
"about": {
"@id": "./"
},
"conformsTo": {
@stain
stain / ro-crate-preview.html
Created April 14, 2021 12:29
<html>
<head>
<script type="application/ld+json">
{
"@context": "https://w3id.org/ro/crate/1.1/context",
"@graph": [
@stain
stain / Dataset.yaml
Last active October 8, 2020 02:32
example output from bioschemas/ProfileGenerator
Overwrite Dataset-0.1-DRAFT.html (Y/n): ---
name: Dataset
official_type: Dataset
type_base_url: https://schema.org/
description: "A body of structured information describing some topic(s) of interest."
version: '0.1'
version_date: 20201008T023206
status: DRAFT
spec_type: Profile
group: Dataset