def setUp(self):
self.mail = '*****@*****.**'
self.fn = './res/HIV_gp120.nex'
self.datatype = 0
self.gencodeid = 0
self.type = 'bsrel'
self.created_analysis = msa.upload_file(self.fn, self.datatype,
self.gencodeid, self.mail)
self.bsrel_params = {
'treemode' : 0,
}
self.bsrel_analysis = analysis.create_analysis(self.created_analysis.id,
self.type,
self.bsrel_params)
def setUp(self):
self.mail = '*****@*****.**'
self.fn = './res/HIV_gp120.nex'
self.datatype = 0
self.gencodeid = 0
self.type = 'meme'
self.created_analysis = msa.upload_file(self.fn, self.datatype,
self.gencodeid, self.mail)
self.meme_params = {
'treemode' : 0,
'modelstring' : '010010',
'pvalue' : 0.1,
'sendmail' : True
}
self.meme_analysis = analysis.create_analysis(self.created_analysis.id,
self.type,
self.meme_params)
# OR IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF
# MERCHANTABILITY, FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT.
# IN NO EVENT SHALL THE AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY
# CLAIM, DAMAGES OR OTHER LIABILITY, WHETHER IN AN ACTION OF CONTRACT,
# TORT OR OTHERWISE, ARISING FROM, OUT OF OR IN CONNECTION WITH THE
# SOFTWARE OR THE USE OR OTHER DEALINGS IN THE SOFTWARE.
import datamonkey.msa as msa
import datamonkey.analysis as analysis
import time
mail = '*****@*****.**'
fn = './res/HIV_gp120.nex'
msa_obj = msa.upload_file(fn, 0, 0, mail)
bsrel_params = {
'treemode' : 0,
}
# Create a new analysis and poll
bsrel_analysis = analysis.create_analysis(msa_obj.id, 'bsrel', bsrel_params)
bsrel_analysis.poll()
print bsrel_analysis.json
## Get an existing analysis and print results
#bsrel_analysis = analysis.get_by_id(1, 'upload.958520133127023.1', 'bsrel' )
#results = bsrel_analysis.json['bsrelresults']
#print len(results)
# TORT OR OTHERWISE, ARISING FROM, OUT OF OR IN CONNECTION WITH THE
# SOFTWARE OR THE USE OR OTHER DEALINGS IN THE SOFTWARE.
import datamonkey.msa as msa
import datamonkey.analysis as analysis
import time
mail = '*****@*****.**'
fn = './res/HIV_gp120.nex'
#msa_obj = msa.upload_file(fn, 0, 0, mail)
meme_params = {
'treemode' : 0,
'modelstring' : '010010',
'pvalue' : 0.1,
'sendmail' : True
}
# Create a new analysis and poll
meme_analysis = analysis.create_analysis('upload.146437568627481.1', 'meme', meme_params)
print meme_analysis
#meme_analysis.poll()
print meme_analysis.json
## Get an existing analysis and print results
#meme_analysis = analysis.get_by_id(1, 'upload.45114038285438.1', 'meme' )
#results = meme_analysis.json['memeresults']
#print len(results)
