def test_loadJunctionReadName():
from LoadCandidates import test_loadFusionCandidates
candidateDic = test_loadFusionCandidates()
junctionReadNamePath = '../testdata/star-fusion.junction_read_names'
return loadJunctionReadName(junctionReadNamePath, candidateDic)
def test_loadSpanningReadName():
from LoadCandidates import test_loadFusionCandidates
candidateDic = test_loadFusionCandidates()
spanningReadNamePath = '../testdata/star-fusion.spanning_read_names'
return loadSpanningReadName(spanningReadNamePath, candidateDic)
def test_loadJunctionReadName():
from LoadCandidates import test_loadFusionCandidates
candidateDic = test_loadFusionCandidates()
junctionReadNamePath = '../testdata/star-fusion.junction_read_names'
return loadJunctionReadName(junctionReadNamePath, candidateDic)
def test_output():
from LoadCandidates import test_loadFusionCandidates
candidateDic = test_loadFusionCandidates()
from DedupReads import test_dedup1, test_dedup2
junctionDedupReadDic = test_dedup1()
spanningDedupReadDic = test_dedup2()
samPath = '../testdata/Chimeric.out.sam.gz'
prefix = '../testdata/testresult'
output(candidateDic, junctionDedupReadDic, spanningDedupReadDic, samPath, prefix)
def test_output():
from LoadCandidates import test_loadFusionCandidates
candidateDic = test_loadFusionCandidates()
from DedupReads import test_dedup1, test_dedup2
junctionDedupReadDic = test_dedup1()
spanningDedupReadDic = test_dedup2()
samPath = '../testdata/Chimeric.out.sam.gz'
prefix = '../testdata/testresult'
output(candidateDic, junctionDedupReadDic, spanningDedupReadDic, samPath,
prefix)