manthey

#!/usr/bin/env python

import argparse
import girder_client
import girder_client.cli
import os
import re


def get_girder_client(opts):

manthey

FROM ubuntu:18.04

# Prerequisites and runtimes
RUN apt-get update && apt-get upgrade -y && apt-get install -y --no-install-recommends \
    build-essential \
    git \
    python-dev \
    python-pip \
    python-setuptools \
    python-wheel \

manthey

topFolder = Folder().load(id=<id>, force=True)
allFolders = [topFolder]
idx = 0
while idx < len(allFolders):
  allFolders.extend(list(Folder().childFolders(allFolders[idx], 'folder', force=True))
  idx += 1

manthey

import argparse
import base64
import io
import json
import math
import os
import subprocess
import sys
import tempfile

manthey

manthey

import sys
import time

import girder_client

# Your instance of girder with the api/v1 path
apiUrl = 'http://abc.kitware.com:8085/api/v1'
# An authentication token that has permission to run jobs
apiToken = '64characterGirderTokenString'
# This is the directory where all of the images to process are located

manthey

#!/usr/bin/env python3

import sys

list1 = set(entry for entry in sys.argv[1].strip().replace('\n', ',').split(',') if '==' in entry)
list2 = set(entry for entry in sys.argv[2].strip().replace('\n', ',').split(',') if '==' in entry)
diff1 = list1 - list2
diff2 = list2 - list1
print(sorted(list1))
print(diff1, diff2)

manthey

---
version: '3'
services:
  # To use a mongo container, uncomment this block and the links in the girder
  # block.  In the Dockerfile, disable starting mongo and enable the sysctl and
  # iptables commands.
  # mongodb:
  #   image: mongo:4.4
  #   command: bash -c "mkdir /dev/shm/mongo && mongod --nojournal --dbpath=/dev/shm/mongo --noauth --bind_ip_all --quiet --logpath /var/log/mongodb/mongod.log"
  #   # command: bash -c "mongod --nojournal --noauth --bind_ip_all --quiet --logpath /var/log/mongodb/mongod.log"

manthey

import logging
import sys

import dicomslide
import dicomweb_client
import pydicom

dslog = logging.getLogger('dicomslide')
# dslog.addHandler(logging.StreamHandler(sys.stderr))
# dslog.setLevel(logging.WARN)

manthey

import os
from collections import defaultdict

import configurations.importer
import django
from django.apps import apps
from django.db import models

os.environ['DJANGO_SETTINGS_MODULE'] = 'shapeworks_cloud.settings'
os.environ.setdefault('DJANGO_CONFIGURATION', 'DevelopmentConfiguration')