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blankdots / gitlab_api.py
Last active April 26, 2021 15:49
gitlab_api.py
"""Get information on Gitlab projects
"""
from typing import AsyncGenerator, Dict
import httpx
import logging
import click
import sys
import asyncio
from datetime import datetime
@blankdots
blankdots / keybase.md
Created December 11, 2020 11:08

Keybase proof

I hereby claim:

  • I am blankdots on github.
  • I am blankdots (https://keybase.io/blankdots) on keybase.
  • I have a public key ASC-cRq6uk6xRuuB5wtc9odLEQOZMU5F-VOy_s2VY6o62go

To claim this, I am signing this object:

@blankdots
blankdots / orch-api.yml
Created May 14, 2020 07:52
openapi: 3.0.0
info:
description: SDA orchestrator API for standalone Sensitive Data Archive
version: "1.0"
title: SDA Orchestrator API
license:
name: Apache 2.0
url: http://www.apache.org/licenses/LICENSE-2.0
tags:
- name: trigger
@blankdots
blankdots / Dockerfile
Last active April 24, 2020 14:26 — forked from viklund/Dockerfile
Crypt4gh docker experiments
FROM debian:10-slim
## Otherwise Java won't install
RUN mkdir -p /usr/share/man/man1
RUN apt-get update \
&& apt-get install -y gnupg2
## This is to get openjdk-11-jre to install on -slim
RUN apt-key adv --keyserver keyserver.ubuntu.com --recv-keys EA8CACC073C3DB2A
@blankdots
blankdots / makefile
Last active May 22, 2018 10:25
version 2 of https://gist.github.com/blankdots/bb4714b95899fd4e8e100d5961420183
# this script works in both MacOS and Linux
.PHONY: upload submit user
SHELL := /bin/bash
DOCKER_PATH=$(shell pwd)
#GPG_EXEC=/usr/local/gnupg-2.2/bin/gpg2
GPG_EXEC=/usr/bin/gpg2
SSH_KEY_PUB=~/.ssh/dummy.key.pub
SSH_KEY_PRIV=~/.ssh/dummy.key
@blankdots
blankdots / makefile
Last active May 28, 2018 11:13
makefile
.PHONY: upload submit user
DOCKER_PATH=/home/stenegru/Software/test/LocalEGA/deployments/docker
GPG_EXEC=/usr/bin/gpg2
# GPG_EXEC=gpg
SSH_KEY_PUB=~/.ssh/dummy.key.pub
SSH_KEY_PRIV=~/.ssh/dummy.key
INSTANCE_PORT=$(shell awk -F= '/DOCKER_PORT_inbox/ {print $$2}' $(DOCKER_PATH)/bootstrap/settings/swe1)
GPG_HOME=$(DOCKER_PATH)/private/swe1/gpg
@blankdots
blankdots / visualisation.txt
Created March 21, 2017 09:15
We can take inspiration in the visualisation from such a platform: https://github.com/refinery-platform/refinery-platform
short poster: Interactive Visualization of Provenance Graphs for Reproducible Biomedical Research http://gehlenborg.com/wp-content/uploads/refinery_poster_biovis-2015.pdf
or: SATORI: A System for Ontology-Guided Visual Exploration of Biomedical Data Repositories http://www.biorxiv.org/content/biorxiv/early/2016/04/05/046755.full.pdf
or more visualisation examples:
https://flekschas.github.io/d3-list-graph/
https://github.com/Data2Semantics/provoviz
http://www.caleydo.org/publications/2016_eurovis_avocado/ with: http://demo.caleydo.org/pathfinder/
@blankdots
blankdots / sparqlwrapper.py
Last active January 30, 2017 18:04
template for construct and select to rdflib
from rdflib import ConjunctiveGraph, URIRef, Literal
from SPARQLWrapper import SPARQLWrapper, JSON
# import json
#http://rdfextras.readthedocs.io/en/latest/working_with.html
graph = ConjunctiveGraph()
sparql = SPARQLWrapper("http://localhost:3030/ds/query")
# add a default graph, though that can also be in the query string
@blankdots
blankdots / pylama config
Last active October 29, 2019 05:45
pylama config
[pylama]
linters = mccabe,pep257,pep8,pyflakes
ignore = D203,D212,D213,D404,D406,D407,D408,D409,D100,D104
max_line_length = 160
[pylama:pycodestyle]
max_line_length = 300
[pylama:pylint]
max_line_length = 300
@blankdots
blankdots / genetic data.ipynb
Last active October 18, 2015 12:55
Software for Scientists - October 2015
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