ydeng/bmlsa
1
0
Fork 0
Code Issues Pull Requests Packages Projects Releases Wiki Activity

Fixed deployed CLI import paths
All checks were successful
ydeng/bmlsa/pipeline/head This commit looks good
Details

Browse Source
This commit is contained in:
Harrison Deng 2023-04-21 13:54:57 -05:00
parent 2a80c2aea2
commit 50210a884d
4 changed files with 7 additions and 7 deletions
Show Stats Download Patch File Download Diff File Expand all files Collapse all files

5
bmlsa/aligner.py
View File

@ -1,7 +1,6 @@
from Bio.Align import PairwiseAligner, substitution_matrices from Bio.Align import PairwiseAligner, substitution_matrices
from exceptions import UnexpectedAlignmentResult from bmlsa.datatypes import AlignedSequence
from bmlsa.exceptions import UnexpectedAlignmentResult
from datatypes import AlignedSequence
def protein_align_many_to_one_ssw(sequence: str, queries: dict[str, AlignedSequence]): def protein_align_many_to_one_ssw(sequence: str, queries: dict[str, AlignedSequence]):

4
bmlsa/cli.py
View File

@ -1,9 +1,9 @@
import os import os
import argparse import argparse
from Bio import SeqIO from Bio import SeqIO
from aligner import protein_align_many_to_one_ssw from bmlsa.aligner import protein_align_many_to_one_ssw
from persistence import read_annotations_from_csv, save_alignments_to_csv from bmlsa.persistence import read_annotations_from_csv, save_alignments_to_csv
def main(): def main():

3
bmlsa/persistence.py
View File

@ -1,5 +1,6 @@
import csv import csv
from datatypes import AlignedSequence
from bmlsa.datatypes import AlignedSequence
def read_annotations_from_csv( def read_annotations_from_csv(

2
setup.cfg
View File

@ -1,6 +1,6 @@
[metadata] [metadata]
name = bmlsa name = bmlsa
version = 0.0.1 version = 0.0.2
[options] [options]
packages = bmlsa packages = bmlsa