Ecosyste.ms: Issues

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

GitHub / biologyguy/BuddySuite issues and pull requests

#127 - "FTP Error: got more than 8192 bytes"

Issue - State: closed - Opened by dougwyu over 5 years ago - 1 comment

#126 - AlignBuddy in multiple cores

Issue - State: closed - Opened by amartinezgarcia over 6 years ago - 5 comments

#125 - Error report: DBBuddy

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

#124 - Pull Records blank line issue

Issue - State: closed - Opened by biologyguy over 6 years ago

#123 - Change function names: split_by_x_files and split_by_seq_number

Pull Request - State: closed - Opened by paulgzlz over 6 years ago - 1 comment

#122 - Add split_by_seq_number function

Pull Request - State: closed - Opened by paulgzlz almost 7 years ago - 1 comment

#121 - Add function split_by_file_number

Pull Request - State: closed - Opened by paulgzlz almost 7 years ago - 2 comments

#120 - Return no records when using Sb.pull_recs() with empty file

Issue - State: closed - Opened by biologyguy almost 7 years ago
Labels: bug

#119 - Sb.split_to_x_files() and Sb.split_to_x_records()

Issue - State: closed - Opened by biologyguy almost 7 years ago - 1 comment
Labels: New Function

#118 - Add circular to -frs and -isd

Pull Request - State: closed - Opened by paulgzlz almost 7 years ago - 6 comments

#117 - Sb.accn2name()

Issue - State: open - Opened by biologyguy almost 7 years ago
Labels: New Function

#116 - Alb.validate_alignments()

Issue - State: open - Opened by biologyguy almost 7 years ago
Labels: New Function

#115 - sb -ppo add number to identical prefixes

Pull Request - State: closed - Opened by paulgzlz almost 7 years ago - 2 comments

#114 - problem with deleting invariant sites

Issue - State: closed - Opened by thkuo almost 7 years ago - 1 comment

#113 - Add weighted mode to Alb.consensus

Pull Request - State: closed - Opened by paulgzlz about 7 years ago - 2 comments

#112 - Convert to Python3

Pull Request - State: closed - Opened by ralic over 7 years ago - 2 comments

#111 - NCBI switched to full ACCN support (drops GI)

Issue - State: closed - Opened by biologyguy over 7 years ago - 1 comment
Labels: bug, Critical

#110 - Prune taxa error

Issue - State: closed - Opened by biologyguy over 7 years ago - 4 comments
Labels: bug

#109 - Add support for circular sequences

Issue - State: closed - Opened by biologyguy over 7 years ago - 1 comment
Labels: enhancement

#108 - Add in Connor Skennerton to LICENSE file

Pull Request - State: closed - Opened by ctSkennerton over 7 years ago

#107 - DatabaseBuddy save states across Python versions

Issue - State: closed - Opened by biologyguy over 7 years ago - 1 comment
Labels: bug

#106 - Python 3.6 breaks Travis-CI builds

Issue - State: closed - Opened by biologyguy over 7 years ago - 1 comment
Labels: bug

#105 - PhyloBuddy: add in ascending and descending sorting of nodes

Pull Request - State: closed - Opened by ctSkennerton over 7 years ago - 10 comments

#104 - Allow DatabaseBuddy to run without launching a live shell

Issue - State: closed - Opened by biologyguy over 7 years ago - 1 comment
Labels: enhancement

#103 - Add a provenance tracker

Issue - State: open - Opened by biologyguy over 7 years ago
Labels: enhancement

#102 - Catch multiple flags

Issue - State: open - Opened by biologyguy over 7 years ago
Labels: enhancement

#101 - DBBuddy result slices

Issue - State: closed - Opened by biologyguy over 7 years ago - 1 comment
Labels: enhancement

#100 - NEXUS interleaved/sequential

Issue - State: closed - Opened by biologyguy over 7 years ago - 3 comments
Labels: enhancement

#99 - Wrap alignment and tree inference web services

Issue - State: open - Opened by biologyguy over 7 years ago
Labels: enhancement

#98 - Start-end coordinates for `find` tools

Issue - State: closed - Opened by biologyguy over 7 years ago - 1 comment
Labels: enhancement

#97 - DBBuddy summaries

Issue - State: closed - Opened by biologyguy over 7 years ago - 1 comment
Labels: enhancement

#96 - Test builds on various Python versions with Tox

Issue - State: closed - Opened by biologyguy over 7 years ago - 1 comment
Labels: enhancement

#95 - Add gff3 support

Issue - State: open - Opened by biologyguy over 7 years ago
Labels: enhancement

#94 - Try to manage input as streams instead of storing everything in RAM

Issue - State: open - Opened by biologyguy over 7 years ago - 2 comments
Labels: enhancement

#93 - Dynamically adjust argparse help output to fit the user's terminal window.

Issue - State: closed - Opened by biologyguy over 7 years ago - 1 comment
Labels: enhancement

#92 - 'Lazy' imports.

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

#91 - Implement -s flag to set a seed value.

Issue - State: closed - Opened by biologyguy over 7 years ago - 1 comment
Labels: enhancement

#90 - Function requests

Issue - State: closed - Opened by biologyguy over 7 years ago - 1 comment
Labels: enhancement

#89 - Properly handle KeyboardInterrupt in DBBuddy

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

#88 - PhyloBuddy handling of unrecognized args

Issue - State: closed - Opened by biologyguy almost 8 years ago - 1 comment

#87 - Format wiki pages for extended command line help

Issue - State: open - Opened by biologyguy almost 8 years ago - 2 comments
Labels: enhancement

#86 - Alex dev

Pull Request - State: closed - Opened by alexanjm almost 8 years ago - 1 comment

#85 - Create Jupyter notebooks to demonstrate functionality

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

#84 - combining seqbuddy -dm and -cs command line options

Issue - State: closed - Opened by sellisd almost 8 years ago - 1 comment

#83 - seqbuddy rename ids

Issue - State: closed - Opened by sellisd almost 8 years ago - 4 comments

#82 - Switch README to rst format

Issue - State: closed - Opened by biologyguy about 8 years ago - 1 comment

#81 - Consider migrating Wiki to PanDocs

Issue - State: open - Opened by biologyguy about 8 years ago
Labels: enhancement

#80 - Feature: SeqBuddy.pull_recs_with_feature

Issue - State: closed - Opened by biologyguy about 8 years ago - 1 comment

#79 - Wiki page for extract_feature_sequences

Issue - State: closed - Opened by biologyguy about 8 years ago - 2 comments

#77 - Handle the common raxml names (PhyloBuddy)

Issue - State: closed - Opened by biologyguy about 8 years ago - 1 comment

#75 - Update LICENSE

Pull Request - State: closed - Opened by djmitche about 8 years ago - 1 comment

#74 - Added name to contributor list w/ Public Domain License.

Pull Request - State: closed - Opened by etiology about 8 years ago

#73 - Make work Public Domain

Pull Request - State: closed - Opened by biojerm about 8 years ago - 1 comment

#72 - Added name to contributor list w/ Public Domain License.

Pull Request - State: closed - Opened by apalm112 about 8 years ago

#71 - Add 'Jason Bowen * Public Domain' to LICENSE.txt

Pull Request - State: closed - Opened by jwbowen about 8 years ago

#70 - Write unit tests for buddy_resources

Issue - State: closed - Opened by biologyguy about 8 years ago - 1 comment

#69 - Create dedicated folder for diagnostics

Issue - State: closed - Opened by KarlKeat about 8 years ago - 1 comment

#68 - Feature requests for V 1.3

Issue - State: closed - Opened by biologyguy over 8 years ago

#67 - Link to MEME suite in SB Purge page is dead

Issue - State: closed - Opened by KarlKeat over 8 years ago - 4 comments

#66 - Unknown Blast binaries and zips in codebase

Issue - State: closed - Opened by Cabalist over 8 years ago - 2 comments

#65 - Weird Imports

Issue - State: closed - Opened by Cabalist over 8 years ago - 2 comments

#64 - SB prosite_scan and cd_hit functions break alphabetic order

Issue - State: closed - Opened by KarlKeat over 8 years ago - 2 comments

#63 - Feature request: pull out feature sequence

Issue - State: closed - Opened by biologyguy over 8 years ago - 1 comment

#62 - Implement 'Find open reading frames' tool in SeqBuddy

Issue - State: closed - Opened by biologyguy over 8 years ago - 1 comment

#61 - Implement 'Validate' tool in AlignBuddy

Issue - State: closed - Opened by biologyguy over 8 years ago - 1 comment

#60 - Added a section about using shell aliases for short-form commands ins…

Pull Request - State: closed - Opened by jwbowen over 8 years ago

#59 - How does everyone feel about a requirements file?

Issue - State: closed - Opened by etiology over 8 years ago - 7 comments

#58 - Reimplement .conf file and usage tracking

Issue - State: closed - Opened by biologyguy over 8 years ago - 6 comments

#57 - Fixes #55 attempt 2

Pull Request - State: closed - Opened by etiology over 8 years ago - 1 comment

#56 - Fixes #55

Pull Request - State: closed - Opened by etiology over 8 years ago - 6 comments

#55 - Test Fixtures need to be cleaned up

Issue - State: closed - Opened by etiology over 8 years ago - 2 comments

#54 - Issue 47

Pull Request - State: closed - Opened by jwbowen over 8 years ago

#53 - PhyloBuddy new feature request for collapsing polytomies

Issue - State: closed - Opened by jmillar201 over 8 years ago - 1 comment

#52 - Issue 49

Pull Request - State: closed - Opened by jwbowen over 8 years ago

#51 - Issue 49

Pull Request - State: closed - Opened by jwbowen over 8 years ago - 1 comment

#50 - Move MyFuncs code over to buddy_resources

Issue - State: closed - Opened by biologyguy over 8 years ago - 1 comment

#49 - Cleaned files with gaps

Pull Request - State: closed - Opened by j9chan over 8 years ago - 4 comments

#48 - Reorganize repo to be more in line with common Python practice

Issue - State: closed - Opened by jwbowen over 8 years ago - 5 comments

#46 - count_residues estimates frequency '-'. add clean?

Issue - State: closed - Opened by mendessoares over 8 years ago - 4 comments

#45 - count_codons tries counting '---'

Issue - State: closed - Opened by mendessoares over 8 years ago - 5 comments

#44 - blastp and blastn binaries not found for -bl2s

Issue - State: closed - Opened by mendessoares over 8 years ago - 1 comment

#43 - Dump the sequence files from failed hash tests to file

Issue - State: closed - Opened by biologyguy over 8 years ago - 3 comments

#40 - How many other's peoples software do we want to unit test

Issue - State: closed - Opened by biologyguy over 8 years ago - 2 comments

#29 - seqbuddy suite fails with blast 2.3.0

Issue - State: closed - Opened by ericbuckley over 8 years ago - 1 comment

#28 - External Dependency List

Issue - State: closed - Opened by etiology over 8 years ago - 1 comment

#25 - Graphical Installer Window Size

Issue - State: closed - Opened by apalm112 over 8 years ago - 1 comment

#24 - Graphical Installer Font

Issue - State: closed - Opened by apalm112 over 8 years ago - 1 comment

#23 - test suites need to be reorganized

Issue - State: closed - Opened by etiology over 8 years ago - 2 comments

#22 - Need to rename packages, modules, and classes (PEP8)

Issue - State: closed - Opened by etiology over 8 years ago - 2 comments

#16 - Need Stats on file size(s) used

Issue - State: closed - Opened by etiology over 8 years ago - 1 comment

#15 - Break up large modules into smaller ones in a package

Issue - State: closed - Opened by etiology over 8 years ago - 1 comment

#14 - Add logging to toolsets

Issue - State: closed - Opened by etiology over 8 years ago - 2 comments

#13 - Add Continuous Integration tool to the repo

Issue - State: closed - Opened by etiology over 8 years ago - 2 comments

#12 - Add tutorials to documentation

Issue - State: closed - Opened by etiology over 8 years ago - 1 comment

#11 - Think about stripping installer from home dir

Issue - State: closed - Opened by biologyguy over 8 years ago - 1 comment

#10 - WildCard import in Installer

Issue - State: closed - Opened by biologyguy almost 9 years ago - 2 comments