manthey

import hashlib
import pprint
import sys

import tifftools


def hash_ifd(idx, ifd, tagSet=tifftools.Tag, collect=None):
    if collect is None:
        collect = {}

manthey

export GIRDER_PORT=8080
export VUE_PORT=8081
SCREEN_NAME=nimbusimage_docker
DOCKER_NAME=girder
SERVICE_NAME="NimbusImage Docker"

pushd /home/ubuntu/UPennContrast

case "$1" in
    install)

manthey

import json
import os
import tempfile
from pathlib import Path

from .datastore import datastore


class TestNucleiDetection:

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')

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

---
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

#!/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

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

manthey

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