comparison util/Reader.py @ 33:07cc5384dd61 draft

planemo upload for repository https://github.com/Yating-L/jbrowse-archive-creator.git commit 74a020b6b0a2fa7ff5670d7f154de838dee51dfd

32:7b955a58d8f2

from datatypes.interval.Bed import Bed
from datatypes.interval.BedSimpleRepeats import BedSimpleRepeats
from datatypes.interval.BedSpliceJunctions import BedSpliceJunctions
from datatypes.interval.BlastXml import BlastXml
from datatypes.interval.Gff3 import Gff3
from datatypes.interval.Gff3_mrna import Gff3_mrna
from datatypes.interval.Gff3_transcript import Gff3_transcript
from datatypes.interval.Gtf import Gtf
from datatypes.interval.GtfStringTie import GtfStringTie
from datatypes.interval.BigPsl import BigPsl
from datatypes.interval.BedBlatAlignments import BedBlatAlignments
from datatypes.interval.BedBlastAlignments import BedBlastAlignments
from datatypes.interval.Psl import Psl
from datatypes.sequence.Fasta import Fasta

class Reader(object):
    
    DATATYPE_CLASS = [Bam, BigWig, Bed, BedSimpleRepeats, 
        BedSpliceJunctions, BigPsl, BedBlatAlignments, BedBlastAlignments, 
        BlastXml, Gff3, Gff3_mrna, Gff3_transcript, Gff3_mrna, Gtf, GtfStringTie, Psl, Fasta]

    def __init__(self, input_json_file):
        self.inputFile = input_json_file
        self.args = self.loadJson()
        

33:07cc5384dd61

from datatypes.interval.Bed import Bed
from datatypes.interval.BedSimpleRepeats import BedSimpleRepeats
from datatypes.interval.BedSpliceJunctions import BedSpliceJunctions
from datatypes.interval.BlastXml import BlastXml
from datatypes.interval.Gff3 import Gff3
from datatypes.interval.Gtf import Gtf
from datatypes.interval.BigPsl import BigPsl
from datatypes.interval.BedBlatAlignments import BedBlatAlignments
from datatypes.interval.BedBlastAlignments import BedBlastAlignments
from datatypes.interval.Psl import Psl
from datatypes.sequence.Fasta import Fasta

class Reader(object):
    
    DATATYPE_CLASS = [Bam, BigWig, Bed, BedSimpleRepeats, 
        BedSpliceJunctions, BigPsl, BedBlatAlignments, BedBlastAlignments, 
        BlastXml, Gff3, Gtf, Psl, Fasta]

    def __init__(self, input_json_file):
        self.inputFile = input_json_file
        self.args = self.loadJson()