Ecosyste.ms: Issues

An open API service for providing issue and pull request metadata for open source projects.

GitHub / SBRG/ssbio issues and pull requests

#58 - Returns empty df for AlphaFoldDB files

Issue - State: open - Opened by knowmili about 1 month ago

#53 - tmhmm installtion and running

Issue - State: open - Opened by kishor2019 about 3 years ago

#52 - SIFTS map uniprot resnum to PDB function fix

Pull Request - State: open - Opened by JoshuaMeyers almost 4 years ago

#51 - mapping pdb resnum to uniprot resnum

Issue - State: open - Opened by JoshuaMeyers almost 4 years ago

#50 - Import Error - Bio.Alphabet has been removed from Biopython

Issue - State: open - Opened by a-r-j about 4 years ago - 2 comments

#47 - Fail to read P00533

Issue - State: open - Opened by bkellman over 6 years ago

#46 - tmscore issue

Issue - State: open - Opened by bkellman over 6 years ago - 1 comment
Labels: bug

#45 - Issues running the tutorial

Issue - State: open - Opened by bkellman over 6 years ago - 1 comment
Labels: bug

#44 - Comprehensive calculation of amino acid composition

Issue - State: open - Opened by nmih over 6 years ago
Labels: enhancement

#43 - Add runtime estimates for third party programs

Issue - State: open - Opened by nmih over 6 years ago
Labels: enhancement

#42 - Some more complex updates, bug fixes

Pull Request - State: closed - Opened by nmih over 6 years ago

#41 - Raise error when PDB file cannot be downloaded

Pull Request - State: closed - Opened by nmih over 6 years ago

#40 - Update Protein class to match other changes

Pull Request - State: closed - Opened by nmih over 6 years ago

#39 - Additional parallelization tests and some crucial bug fixes

Pull Request - State: closed - Opened by nmih over 6 years ago

#38 - Remove webcolors from requirements

Pull Request - State: closed - Opened by nmih over 6 years ago

#37 - Added example function to parallelize KEGG mapping.

Pull Request - State: closed - Opened by nmih over 6 years ago

#36 - Update requirements.txt

Pull Request - State: closed - Opened by nmih over 6 years ago

#35 - Update requirements.txt

Pull Request - State: closed - Opened by nmih over 6 years ago

#34 - Fix notebook errors

Pull Request - State: closed - Opened by nmih over 6 years ago

#33 - Fix notebook errors

Pull Request - State: closed - Opened by nmih over 6 years ago

#32 - Fix notebook errors

Pull Request - State: closed - Opened by nmih over 6 years ago

#31 - Fix notebook errors

Pull Request - State: closed - Opened by nmih over 6 years ago

#30 - Fix notebook errors

Pull Request - State: closed - Opened by nmih over 6 years ago

#29 - Fix notebook errors

Pull Request - State: closed - Opened by nmih over 6 years ago

#28 - Add nbsphinx_allow_errors

Pull Request - State: closed - Opened by nmih over 6 years ago

#27 - Develop

Pull Request - State: closed - Opened by nmih over 6 years ago

#25 - Aquaria -- perhaps ssbio can have links to aquaria info pages

Issue - State: open - Opened by nmih almost 7 years ago
Labels: enhancement

#24 - Pyspark and parquet for sequences analysis to parallelize computations

Issue - State: open - Opened by nmih almost 7 years ago
Labels: enhancement

#22 - Revamp logging to disable at higher levels

Issue - State: open - Opened by nmih almost 7 years ago
Labels: enhancement

#21 - Tab completion issues on Jupyter notebook for a GEMPRO object

Issue - State: closed - Opened by nmih almost 7 years ago - 3 comments
Labels: bug

#20 - Importing ssbio on python2.7 cobra environment

Issue - State: open - Opened by nmih over 7 years ago - 1 comment
Labels: bug

#19 - COBRApy's newest release (0.6.1) moves json attributes into a new module

Issue - State: closed - Opened by nmih over 7 years ago - 2 comments
Labels: bug

#18 - json-tricks - saving a string with two forward slashes

Issue - State: open - Opened by nmih over 7 years ago
Labels: bug

#17 - Problematic PDB files: list of IDs

Issue - State: open - Opened by nmih over 7 years ago - 1 comment
Labels: bug, wontfix

#16 - lxml etree doesn't work in Python 3.6?

Issue - State: open - Opened by nmih over 7 years ago
Labels: bug

#15 - Cleaning mmtf files and saving as pdbs

Issue - State: closed - Opened by nmih over 7 years ago
Labels: bug

#14 - Issue saving PDB 5LZD

Issue - State: open - Opened by nmih over 7 years ago
Labels: bug

#13 - pdb_file_type does not propagate when loading a GEM

Issue - State: closed - Opened by nmih over 7 years ago
Labels: bug

#12 - Intuitive coloring of protein structures

Issue - State: open - Opened by nmih over 7 years ago - 1 comment
Labels: enhancement

#11 - Sequence to structure pairwise alignment parameter tuning

Issue - State: open - Opened by nmih over 7 years ago - 3 comments
Labels: enhancement

#10 - Option to run QC/QA for all structures

Issue - State: open - Opened by nmih over 7 years ago - 1 comment
Labels: enhancement

#9 - No module named json_r

Issue - State: closed - Opened by erolkavvas over 7 years ago - 2 comments
Labels: bug

#8 - AttributeError: 'module' object has no attribute 'urlretrieve'

Issue - State: closed - Opened by erolkavvas over 7 years ago - 3 comments
Labels: bug

#7 - Download structure - fixes for python 2

Issue - State: closed - Opened by nmih over 7 years ago
Labels: bug

#6 - Add feature to map sequences to existing database (100% sequence identity only)

Issue - State: open - Opened by nmih almost 8 years ago
Labels: enhancement

#5 - Problematic PDB files

Issue - State: closed - Opened by nmih almost 8 years ago - 1 comment
Labels: bug

#4 - Problems when saving taxonomy ID and other potential non existing fields from a PDB

Issue - State: closed - Opened by nmih almost 8 years ago - 1 comment
Labels: bug

#3 - Biopython needle alignment does not put quotations around the outfile

Issue - State: open - Opened by nmih about 8 years ago
Labels: bug

#2 - cachetools does not work in Python 2?

Issue - State: closed - Opened by nmih about 8 years ago - 1 comment
Labels: bug, wontfix

#1 - Wanted: structure viewer in Jupyter notebook

Issue - State: closed - Opened by nmih about 8 years ago - 1 comment
Labels: enhancement