comparison getlocalrpackages.py @ 17:a584ff2f7554 draft

Uploaded

16:0027d2f66096

import os
import subprocess

def find_packages(prefix="package_r_"):
    """
    """
    #locate env.sh | grep -i package_r_

    #/data/home/rlazarus/galaxy/tool_dependency_dir/R_3_1_1/3.1.1/fubar/package_r_3_1_1/d9964efbfbe3/env.sh
    #/data/home/rlazarus/galtest/tool_dependency_dir/R_3_1_1/3.1.1/fubar/package_r_3_1_1/63cdb9b2234c/env.sh
    eprefix = prefix
    if prefix.find('/') <> -1:
        eprefix = prefix.replace('/','\/') # for grep
    cl = ['locate env.sh | grep -i %s' % eprefix,]
    p = subprocess.Popen(cl, stdout=subprocess.PIPE, stderr=subprocess.PIPE,shell=True)
    out, err = p.communicate()
    fpaths = out.split('\n')
    fpaths = [x for x in fpaths if len(x) > 1]
    fver = [x.split(os.path.sep)[-4:-1] for x in fpaths]

17:a584ff2f7554

import os
import subprocess
import sys

new_path = [ os.path.join( os.getcwd(), "lib" ) ]
#new_path.extend( sys.path[1:] ) # remove scripts/ from the path
sys.path = new_path
from galaxy import config

aconfig = config.Configuration( )
M_A_K = aconfig.master_api_key
print M_A_K


def find_packages(prefix="package_r_"):
    """
    """
    #locate env.sh | grep -i package_r_

    #/data/home/rlazarus/galaxy/tool_dependency_dir/R_3_1_1/3.1.1/fubar/package_r_3_1_1/d9964efbfbe3/env.sh
    #/data/home/rlazarus/galtest/tool_dependency_dir/R_3_1_1/3.1.1/fubar/package_r_3_1_1/63cdb9b2234c/env.sh
    eprefix = prefix
    if prefix.find('/') <> -1:
        eprefix = prefix.replace('/','\/') # for grep
    path = '.'
    # fails on nitesh's recent mac - locate not working 
    # cl = ['locate env.sh | grep -i %s' % eprefix,]
    cl = ['find %s -iname "env.sh" | grep -i %s' % (path,eprefix),]
    p = subprocess.Popen(cl, stdout=subprocess.PIPE, stderr=subprocess.PIPE,shell=True)
    out, err = p.communicate()
    fpaths = out.split('\n')
    fpaths = [x for x in fpaths if len(x) > 1]
    fver = [x.split(os.path.sep)[-4:-1] for x in fpaths]