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Issues list

Returns empty df for AlphaFoldDB files
#58 opened Sep 23, 2024 by knowmili updated Sep 23, 2024
ImportError: cannot import name 'one_to_three' from 'Bio.PDB.Polypeptide'
#57 opened Apr 29, 2024 by miri-2000 updated Apr 29, 2024
ImportError: cannot import name 'Mapping' from 'collections'
#56 opened Dec 23, 2023 by wook2014 updated Dec 23, 2023
MSMS installation on MacOS
#55 opened Sep 13, 2023 by gcroci2 updated Sep 13, 2023
Difficulty installing SSBIO package due to dependency conflicts
#54 opened Jul 6, 2023 by MaryAnnBlaetke updated Jul 6, 2023
Import Error - Bio.Alphabet has been removed from Biopython
#50 opened Oct 27, 2020 by a-r-j updated May 11, 2022
2
tmhmm installtion and running
#53 opened Oct 6, 2021 by kishor2019 updated Oct 6, 2021
mapping pdb resnum to uniprot resnum
#51 opened Nov 26, 2020 by JoshuaMeyers updated Nov 26, 2020
Use of .ix indexing is deprecated in pandas & no pandas version specified in requirements.
#49 opened Aug 24, 2020 by a-r-j updated Aug 24, 2020
characterize_residue_mutation will only return properties defined in EXTENDED_AA_PROPERTY_DICT_ONE bug
#48 opened May 30, 2020 by pvphaneuf updated May 30, 2020
Fail to read P00533
#47 opened May 11, 2018 by bkellman updated May 11, 2018
Issues running the tutorial bug
#45 opened Apr 30, 2018 by bkellman updated May 10, 2018
1
tmscore issue bug
#46 opened Apr 30, 2018 by bkellman updated May 10, 2018
@nmih
1
Comprehensive calculation of amino acid composition enhancement
#44 opened Mar 9, 2018 by nmih updated Mar 9, 2018
Add runtime estimates for third party programs enhancement
#43 opened Mar 1, 2018 by nmih updated Mar 1, 2018 v1.0
@nmih
Sequence to structure pairwise alignment parameter tuning enhancement
#11 opened Mar 14, 2017 by nmih updated Jan 19, 2018 v1.0
3
Architectural change todo -- PDBProp objects with the same ID for a GEM-PRO should point to the same object rather than being created under different proteins enhancement
#26 opened Jan 18, 2018 by nmih updated Jan 19, 2018
@nmih
1
Aquaria -- perhaps ssbio can have links to aquaria info pages enhancement
#25 opened Dec 12, 2017 by nmih updated Dec 12, 2017
Pyspark and parquet for sequences analysis to parallelize computations enhancement
#24 opened Dec 11, 2017 by nmih updated Dec 11, 2017
Importing ssbio on python2.7 cobra environment bug
#20 opened Jul 19, 2017 by nmih updated Dec 11, 2017 v1.0
1
Revamp logging to disable at higher levels enhancement
#22 opened Dec 11, 2017 by nmih updated Dec 11, 2017 v2.0
Option to run QC/QA for all structures enhancement
#10 opened Mar 14, 2017 by nmih updated Dec 11, 2017 v1.0
1
Add feature to map sequences to existing database (100% sequence identity only) enhancement
#6 opened Jan 23, 2017 by nmih updated Dec 11, 2017 v1.5
Problematic PDB files: list of IDs bug wontfix
#17 opened May 4, 2017 by nmih updated Oct 31, 2017
@nmih
1
json-tricks - saving a string with two forward slashes bug
#18 opened May 15, 2017 by nmih updated May 22, 2017
ProTip! Updated in the last three days: updated:>2025-03-06.