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https://github.com/galaxyproject/galaxy.git
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Greg Von Kuster
67 lines
2.9 KiB
Python
67 lines
2.9 KiB
Python
from base.twilltestcase import TwillTestCase
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""" Tests are executed in order, sorted by name"""
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class UploadData( TwillTestCase ):
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def test_upload( self ):
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"""test_get_data.test_upload: Testing single upload"""
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self.new_history()
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self.upload_file('MyData.bed',ftype='auto', dbkey='hg18')
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self.verify_dataset_correctness('MyData.bed', hid=1)
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self.verify_genome_build(dbkey='hg18')
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def test_multi_upload(self):
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"""test_get_data.test_multi_upload: Testing multiple uploads"""
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self.new_history()
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self.upload_file('1.bed')
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self.verify_dataset_correctness('1.bed')
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self.upload_file('2.bed', dbkey='hg17')
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self.verify_dataset_correctness('2.bed')
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self.upload_file('3.bed', dbkey='hg17', ftype='bed')
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self.verify_dataset_correctness('3.bed')
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class GetEncodeData( TwillTestCase ):
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def test_get_encode_data( self ):
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"""test_get_data.test_get_encode_data"""
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self.new_history()
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self.run_tool('encode_import_chromatin_and_chromosomes1', hg17=['cc.EarlyRepSeg.20051216.bed'] )
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#hg17=[ "cc.EarlyRepSeg.20051216.bed", "cc.EarlyRepSeg.20051216.gencode_partitioned.bed", "cc.LateRepSeg.20051216.bed", "cc.LateRepSeg.20051216.gencode_partitioned.bed", "cc.MidRepSeg.20051216.bed", "cc.MidRepSeg.20051216.gencode_partitioned.bed" ] )
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self.wait()
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self.verify_dataset_correctness('cc.EarlyRepSeg.20051216.bed', hid=1)
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#self.verify_dataset_correctness('cc.EarlyRepSeg.20051216.gencode_partitioned.bed', hid=2)
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#self.verify_dataset_correctness('cc.LateRepSeg.20051216.bed', hid=3)
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#self.verify_dataset_correctness('cc.LateRepSeg.20051216.gencode_partitioned.bed', hid=4)
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#self.verify_dataset_correctness('cc.MidRepSeg.20051216.bed', hid=5)
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#self.verify_dataset_correctness('cc.MidRepSeg.20051216.gencode_partitioned.bed', hid=6)
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self.run_tool('encode_import_gencode1', hg17=['gencode.CDS.20051206.bed'])
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self.wait()
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self.verify_dataset_correctness('sc_3D_cds.bed', hid=2)
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class DataSources( TwillTestCase ):
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#def test_hbvar(self):
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# """Getting hybrid gene mutations from HbVar"""
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# #self.load_cookies("hbvar_cookie.txt")
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# self.clear_history()
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# self.run_tool('hbvar')
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# params = dict(
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# htyp="any hybrid gene",
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# )
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# self.submit_form(form=1, button="Submit Query", **params)
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# params = dict(
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# display_format="galaxy",
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# )
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# self.submit_form(form=1, button="Go", **params)
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# params = dict(
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# build="hg17",
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# )
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# self.submit_form(form=1, button="ok", **params);
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# """
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# TODO: Currently fails when using sqlite, although successful when
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# using Postgres. Upgrading our version of sqlite may fix this, but
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# confirmation is required.
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# """
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# self.verify_dataset_correctness('hbvar_hybrid_genes.dat')
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pass
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