Ecosyste.ms: Issues

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GitHub / bcgsc/biobloom issues and pull requests

#91 - Integrate DUST filtering into biobloommaker

Issue - State: open - Opened by JustinChu 27 days ago

#90 - C++11 --> C++14

Pull Request - State: closed - Opened by niemasd 29 days ago - 1 comment

#89 - info long reads mapping - bbtools parameters and inquiring for suggestions

Issue - State: open - Opened by KristinaGagalova about 1 month ago - 2 comments
Labels: enhancement, question

#88 - Why biobloomcategorizer does not output fastq.gz file as expected

Issue - State: closed - Opened by Ivy-ops about 2 months ago - 1 comment

#88 - Why biobloomcategorizer does not output fastq.gz file as expected

Issue - State: closed - Opened by Ivy-ops about 2 months ago - 1 comment

#87 - Need Filter File

Issue - State: closed - Opened by drhoads 9 months ago - 15 comments

#87 - Need Filter File

Issue - State: closed - Opened by drhoads 9 months ago - 15 comments

#86 - Biobloom categorizer dies in a misterious way

Issue - State: closed - Opened by KristinaGagalova 12 months ago - 5 comments

#86 - Biobloom categorizer dies in a misterious way

Issue - State: closed - Opened by KristinaGagalova 12 months ago - 5 comments

#85 - Reproducible outputs

Issue - State: closed - Opened by vdechand over 1 year ago - 3 comments

#84 - False positive

Issue - State: closed - Opened by adrienlemeur over 1 year ago - 3 comments
Labels: question

#83 - Update README.md

Pull Request - State: closed - Opened by lcoombe almost 2 years ago

#82 - configure: error: Requires sdsl

Issue - State: closed - Opened by adrienlemeur almost 2 years ago - 5 comments

#81 - Check virus from human fastq

Issue - State: closed - Opened by lh12565 over 2 years ago - 12 comments

#59 - Add recipe to conda

Issue - State: closed - Opened by kmnip about 3 years ago - 1 comment
Labels: enhancement

#58 - Missing header file "Common/Uncompress.h"

Issue - State: closed - Opened by simon28li almost 4 years ago - 13 comments

#57 - Set up CI with Azure Pipelines

Pull Request - State: open - Opened by lcoombe about 4 years ago - 1 comment

#56 - Error - installation latest biobloom

Issue - State: closed - Opened by KristinaGagalova about 4 years ago - 6 comments
Labels: bug

#55 - Update nthash to newest version

Issue - State: closed - Opened by JustinChu over 4 years ago
Labels: enhancement

#54 - Add score metric to summary

Issue - State: open - Opened by JustinChu over 4 years ago
Labels: enhancement

#53 - Convergence not possible when using probability based binomial scoring

Issue - State: open - Opened by JustinChu over 4 years ago
Labels: bug

#52 - Error thrown when k-mers where used with miBF code.

Issue - State: closed - Opened by JustinChu over 4 years ago
Labels: bug

#51 - During miBF construction automatically adjust occupancy to ensure minimum match length

Issue - State: closed - Opened by JustinChu over 4 years ago
Labels: enhancement

#50 - Run ntcard automatically before creating filter

Issue - State: closed - Opened by JustinChu over 4 years ago
Labels: enhancement

#49 - Segfault triggered by using multiple threads with -e option on a single file using multiple threads

Issue - State: closed - Opened by JustinChu almost 5 years ago - 1 comment
Labels: bug

#48 - Issue compiling release 2.3.2

Issue - State: closed - Opened by jplaverdure about 5 years ago - 2 comments
Labels: bug

#47 - Project page link does not link to latest release

Issue - State: closed - Opened by jplaverdure about 5 years ago - 1 comment

#46 - Add check for identical headers use multiple times

Issue - State: open - Opened by JustinChu over 5 years ago
Labels: enhancement

#45 - Create indexable output

Issue - State: open - Opened by JustinChu over 5 years ago
Labels: enhancement

#44 - Create indexable output

Issue - State: closed - Opened by JustinChu over 5 years ago

#43 - biobloommicategorizer -- terminate called after throwing an instance of 'std::out_of_range'

Issue - State: closed - Opened by mcmero over 5 years ago - 8 comments
Labels: bug

#42 - Provide warning regarding filters with only a small number of targets <100 when using miBFs

Issue - State: closed - Opened by JustinChu over 5 years ago - 2 comments
Labels: wontfix

#40 - Update scoring model in normal BBT

Issue - State: closed - Opened by JustinChu almost 6 years ago
Labels: enhancement

#39 - Update IO code

Issue - State: open - Opened by JustinChu almost 6 years ago
Labels: enhancement

#38 - How to create filters for many reference genomes?

Issue - State: closed - Opened by lh12565 about 6 years ago - 3 comments

#37 - Question for installation

Issue - State: closed - Opened by lh12565 about 6 years ago - 2 comments

#36 - paired end mode not working?

Issue - State: closed - Opened by aldertzomer about 6 years ago - 8 comments
Labels: bug

#35 - Spaced seed classification in Generic Bloom filter

Issue - State: closed - Opened by JustinChu about 6 years ago
Labels: enhancement

#34 - Can't compile on ubuntu 18.04

Issue - State: closed - Opened by TomHarrop over 6 years ago - 3 comments

#33 - Update Linuxbrew version to 2.1.3

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

#32 - Sdsl issue ?

Issue - State: closed - Opened by nektem over 6 years ago - 2 comments
Labels: bug

#31 - Gzip compression is very slow

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

#30 - Problems compiling BBT on MacOS

Issue - State: closed - Opened by emreerhan over 6 years ago - 7 comments
Labels: bug, help wanted

#29 - Build issues with Boost

Issue - State: closed - Opened by conchoecia almost 7 years ago - 2 comments

#28 - Fails with error: invalid variable name: `–-with-boost'

Issue - State: closed - Opened by conchoecia almost 7 years ago - 2 comments

#27 - Add option to exclude output of certain filters

Issue - State: closed - Opened by calchoo almost 7 years ago - 1 comment
Labels: enhancement

#25 - Detailed progressive bloom filter report

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

#24 - Add multiIndex Bloom Filter code to a release version

Issue - State: closed - Opened by JustinChu over 7 years ago

#23 - Improve behavior for progressive mode repeat/subtrative filter

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

#22 - Tagging and recruitment based on quality string constraint

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

#21 - Adding a license to a repository

Issue - State: closed - Opened by tmozgach over 7 years ago - 1 comment

#20 - Adding a license to a repository

Issue - State: closed - Opened by tmozgach over 7 years ago - 3 comments

#19 - Readme: Improved markdown formatting for GitHub.

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

#18 - Revise --ordered option when paired matching

Issue - State: closed - Opened by JustinChu over 7 years ago - 1 comment

#17 - Add smart pair for read pairs

Issue - State: closed - Opened by JustinChu over 7 years ago
Labels: enhancement

#16 - Add into Readme best practices for filter creation using set of reads

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

#15 - Use ntHash in Main program branch

Issue - State: closed - Opened by JustinChu over 7 years ago
Labels: enhancement

#14 - Score computation,

Issue - State: closed - Opened by PaulaAlessio over 7 years ago - 8 comments
Labels: bug

#13 - core dumps for long parameter names

Issue - State: closed - Opened by zyxue over 8 years ago - 2 comments
Labels: bug

#12 - Make release version to fix known bugs

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

#11 - added support for skipping @CO header line

Pull Request - State: closed - Opened by zyxue almost 9 years ago

#10 - Filter creation without fai file in Biobloommaker

Issue - State: closed - Opened by JustinChu almost 9 years ago

#9 - intermittent I/O errors when writing large files (patch included)

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

#8 - samtools faidx problem

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

#7 - results affected by FASTA headers

Issue - State: closed - Opened by benvvalk about 9 years ago - 6 comments

#6 - Fixed spelling and grammar errors in README.md

Pull Request - State: closed - Opened by kyleLesack over 9 years ago
Labels: enhancement

#5 - error: required file './COPYING' not found

Issue - State: closed - Opened by sjackman over 9 years ago - 2 comments
Labels: bug

#4 - 2.0.12 tarball does not include configure

Issue - State: closed - Opened by sjackman over 9 years ago - 8 comments
Labels: question

#3 - error: 'citycrc.h' file not found

Issue - State: closed - Opened by sjackman almost 10 years ago - 2 comments
Labels: bug

#2 - Fails to build on Yosemite with clang

Issue - State: closed - Opened by sjackman almost 10 years ago - 3 comments
Labels: bug