comparison TrackHub.py @ 10:91b3558fa73f draft

planemo upload for repository https://github.com/Yating-L/jbrowse-archive-creator.git commit 479fc6490e24ca0e5034ae6c3579882e97e095e6-dirty

9:ee187d1e0798

#!/usr/bin/env python

import os
import subprocess
import shutil
import json
import utils


class TrackHub:

    def indexName(self):
        subprocess.call(['generate-names.pl', '-v', '--out', self.json])
        print "finished name index \n"

    def makeArchive(self):
        shutil.make_archive(self.out_path, 'zip', self.out_path)
        file_dir = os.path.abspath(self.outfile)
        source_dir = os.path.dirname(file_dir)
        folder_name = os.path.basename(self.outfolder)
        source_name = os.path.basename(self.out_path)
        source = os.path.join(source_dir, folder_name, source_name)

10:91b3558fa73f

#!/usr/bin/env python

import os
import subprocess
import shutil
import zipfile
import json
import utils


class TrackHub:

    def indexName(self):
        subprocess.call(['generate-names.pl', '-v', '--out', self.json])
        print "finished name index \n"

    def makeArchive(self):
        #shutil.make_archive(self.out_path, 'zip', self.out_path)
        os.chdir(os.path.dirname(self.out_path))
        with zipfile.ZipFile(self.out_path + '.zip', 'w', zipfile.ZIP_DEFLATED, allowZip64=True) as zf:
            for root, _, filenames in os.walk(os.path.basename(self.out_path)):
                for name in filenames:
                    name = os.path.join(root, name)
                    name = os.path.normpath(name)
                    zf.write(name, name)
        file_dir = os.path.abspath(self.outfile)
        source_dir = os.path.dirname(file_dir)
        folder_name = os.path.basename(self.outfolder)
        source_name = os.path.basename(self.out_path)
        source = os.path.join(source_dir, folder_name, source_name)