simleo

#!/usr/bin/env python

import re
import subprocess as sp
from operator import itemgetter

import docker


def map_gpu_ids():

simleo

"""\
Find dependent images for a given Docker image ID.
"""

import argparse
import docker


def find_img(img_idx, id):
    try:

simleo

from functools import wraps


def admin_only(*fargs):
    def _admin_only(func):
        @wraps(func)
        def _check_admin(*args, **kwargs):
            self = args[0]
            if not self.user.isAdmin:
                raise RuntimeError("ERROR: admin only")

simleo

import java.util.UUID;
import java.io.PrintWriter;

import loci.formats.ImageReader;
import loci.formats.FormatTools;
import loci.formats.ome.OMEXMLMetadata;
import loci.formats.services.OMEXMLService;
import loci.common.Constants;
import loci.common.Location;
import loci.common.xml.XMLTools;

simleo

# Based on https://github.com/CellMigStandOrg/CMSO-Samples/pull/10

import ome_files
import ome_files.metadata as ofmd

reader = ome_files.OMETIFFReader()
reader.set_id("links/ome_links_1/multifile.companion.ome")
meta = ofmd.OMEXMLMetadata(reader.get_ome_xml())
reader.close()

simleo

#!/bin/bash

set -eu
shopt -s nullglob

AVRO_PARENTDIR=/uod/idr/homes/szleo/features/idr0012-fuchs-cellmorph/screenA/input
IDR_WRITEABLE=/home/idr-scratch/szleo
RUNAS_USER=13500
ADD_TASK="../venv/bin/python tasks.py"
TASKID_LOG=taskid-calc.log

simleo

"""
From-scratch MetaMorph Stack (STK) reader.

Currently just a quick hack. Dumps the TIFF tags to stdout and each
plane to its own single-image TIFF file.
"""

import sys
import struct
from contextlib import closing

simleo

import os

PAGESIZE = os.sysconf("SC_PAGE_SIZE")  # BYTES
STATM_FIELDS = ["size", "resident", "share", "text", "lib", "data", "dt"]


def meminfo(pid=None):
    if pid is None:
        pid = os.getpid()
    pid = str(pid)