Ecosyste.ms: Issues

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GitHub / msioda/BioLockJ issues and pull requests

#162 - Bump express from 4.16.3 to 4.17.3 in /web_app

Pull Request - State: open - Opened by dependabot[bot] about 2 years ago
Labels: dependencies

#161 - Bump qs, body-parser and express in /web_app

Pull Request - State: open - Opened by dependabot[bot] about 2 years ago
Labels: dependencies

#160 - Bump express-handlebars from 3.0.0 to 5.3.1 in /web_app

Pull Request - State: open - Opened by dependabot[bot] almost 3 years ago
Labels: dependencies

#159 - Bump handlebars from 4.1.2 to 4.7.7 in /web_app

Pull Request - State: open - Opened by dependabot[bot] almost 4 years ago
Labels: dependencies

#158 - Bump handlebars from 4.1.2 to 4.7.6 in /web_app

Pull Request - State: closed - Opened by dependabot[bot] over 4 years ago - 1 comment
Labels: dependencies

#157 - Bump handlebars from 4.1.2 to 4.5.3 in /web_app

Pull Request - State: closed - Opened by dependabot[bot] about 5 years ago - 1 comment
Labels: dependencies

#156 - Refactoring of the way we read user arguments

Pull Request - State: closed - Opened by IvoryC over 5 years ago - 2 comments

#155 - GUI update: add ability to verify files and dirs from GUI

Pull Request - State: closed - Opened by palomnyk over 5 years ago

#154 - GUI: Check host paths in docker

Pull Request - State: closed - Opened by palomnyk over 5 years ago

#153 - Docker Updates

Pull Request - State: closed - Opened by mikesioda over 5 years ago

#152 - Check host paths in BLJ GUI

Pull Request - State: closed - Opened by palomnyk over 5 years ago

#151 - dockblj refactor for readability + GUI bug fix

Pull Request - State: closed - Opened by mikesioda over 5 years ago

#150 - Kraken Parser Updates

Pull Request - State: closed - Opened by mikesioda over 5 years ago

#149 - Docker Dev In Progress

Pull Request - State: closed - Opened by mikesioda over 5 years ago

#148 - Aws integration

Pull Request - State: closed - Opened by palomnyk over 5 years ago

#147 - docker bug

Pull Request - State: closed - Opened by mikesioda over 5 years ago

#146 - docker cleanup

Pull Request - State: closed - Opened by mikesioda over 5 years ago

#145 - Docker AWS script updates

Pull Request - State: closed - Opened by mikesioda over 5 years ago

#144 - Fix AWS EC2 Head node bug

Pull Request - State: closed - Opened by mikesioda over 5 years ago

#143 - Fix Run Docker Gui Bug

Pull Request - State: closed - Opened by mikesioda over 5 years ago

#142 - AWS updates

Pull Request - State: closed - Opened by mikesioda over 5 years ago

#141 - update version, add R script fix

Pull Request - State: closed - Opened by mikesioda over 5 years ago

#140 - bug fix

Pull Request - State: closed - Opened by mikesioda over 5 years ago

#139 - Bug Fixes

Pull Request - State: closed - Opened by mikesioda over 5 years ago

#138 - security update

Pull Request - State: closed - Opened by palomnyk over 5 years ago

#137 - Introduces the GenMod module.

Pull Request - State: closed - Opened by RCChan5 over 5 years ago

#136 - Ivory's Updates

Pull Request - State: closed - Opened by IvoryC over 5 years ago

#135 - Rename ValidationUtil executeTask() method

Pull Request - State: closed - Opened by mikesioda over 5 years ago

#134 - Bug Fix

Pull Request - State: closed - Opened by mikesioda over 5 years ago

#133 - Validation2

Pull Request - State: closed - Opened by IvoryC over 5 years ago

#132 - Remove debug line causing error

Pull Request - State: closed - Opened by mikesioda over 5 years ago

#130 - Minor bug fix mapping docker metadata

Pull Request - State: closed - Opened by mikesioda over 5 years ago

#129 - AWS Config Consolidation + Minor Bug Fixes

Pull Request - State: closed - Opened by mikesioda over 5 years ago

#128 - Validation Utility

Pull Request - State: closed - Opened by IvoryC over 5 years ago

#127 - AWS Gui + ImportMetadata Bug Fix

Pull Request - State: closed - Opened by mikesioda over 5 years ago

#126 - AWS Bug Fixes

Pull Request - State: closed - Opened by mikesioda over 5 years ago

#125 - AWS Enhancements / cleanup

Pull Request - State: closed - Opened by mikesioda over 5 years ago - 1 comment

#124 - move blj_support test files into BioLockJ repo

Issue - State: closed - Opened by IvoryC over 5 years ago
Labels: blj_support

#123 - be mindful of what you type

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

#121 - errors to command line if pipelines fails to start

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

#120 - jar file version number

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

#119 - ${var} references in BioLockJ don't work in Ubuntu environment

Issue - State: closed - Opened by IvoryC over 5 years ago
Labels: Ubuntu

#118 - BiolockJ assumes FASTA files are alternating lines

Issue - State: closed - Opened by RCChan5 over 5 years ago

#117 - Is -u required?

Issue - State: closed - Opened by IvoryC over 5 years ago
Labels: question, documentation

#116 - how to comment out biomodules in pipeline

Issue - State: closed - Opened by IvoryC over 5 years ago
Labels: question, documentation

#114 - add help menu through jar file

Issue - State: closed - Opened by IvoryC over 5 years ago
Labels: enhancement, for 1.0

#113 - favicon disappeared with Update gui (#109)

Issue - State: closed - Opened by palomnyk over 5 years ago
Labels: GUI

#112 - Bug fix - AWS Docker DB updates

Pull Request - State: closed - Opened by mikesioda over 5 years ago

#111 - install script uses $BLJ variable before defineing it

Issue - State: closed - Opened by IvoryC over 5 years ago - 1 comment
Labels: has branch

#110 - inform user when we ignore batch size in FastQC

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

#109 - Update gui

Pull Request - State: closed - Opened by palomnyk over 5 years ago

#108 - Bug fix AWS start script

Pull Request - State: closed - Opened by mikesioda almost 6 years ago

#107 - Script error

Pull Request - State: closed - Opened by mikesioda almost 6 years ago

#106 - run pipelines using S3 data

Issue - State: closed - Opened by IvoryC almost 6 years ago
Labels: after-v1.0

#105 - implement AWS properties

Issue - State: closed - Opened by IvoryC almost 6 years ago
Labels: AWS

#104 - unable to override Docker default DBs

Issue - State: closed - Opened by IvoryC almost 6 years ago - 1 comment
Labels: AWS, docker

#103 - BioLockJ Release v1.0

Pull Request - State: closed - Opened by mikesioda almost 6 years ago

#102 - Set up docker auto-builds and release_candidate phase

Issue - State: closed - Opened by IvoryC almost 6 years ago - 4 comments
Labels: docker, documentation, has branch

#101 - BioLockJ v1.0 Release

Pull Request - State: closed - Opened by mikesioda almost 6 years ago - 1 comment

#100 - simplify BLJ_OPTIONS using docker API call from within container

Issue - State: closed - Opened by IvoryC almost 6 years ago - 2 comments
Labels: docker

#99 - record docker image version

Issue - State: closed - Opened by IvoryC almost 6 years ago
Labels: docker

#98 - blj_support - divide by purpose

Issue - State: closed - Opened by IvoryC almost 6 years ago
Labels: blj_support, documentation

#97 - mark releases in blj_support

Issue - State: closed - Opened by IvoryC almost 6 years ago
Labels: blj_support

#96 - package test files

Issue - State: closed - Opened by IvoryC almost 6 years ago

#95 - docker quickie test

Issue - State: closed - Opened by IvoryC almost 6 years ago
Labels: docker, for 1.0

#94 - quickie test in templates

Issue - State: closed - Opened by IvoryC almost 6 years ago

#93 - DADA2 module

Issue - State: closed - Opened by IvoryC almost 6 years ago - 1 comment
Labels: new module, has branch

#92 - Qiime 2 module

Issue - State: closed - Opened by IvoryC almost 6 years ago
Labels: new module

#91 - Allow pipelines without input

Issue - State: closed - Opened by IvoryC almost 6 years ago
Labels: UI

#90 - add 'longfile="gnu"' to line 79. This allows for filepaths to exceed…

Pull Request - State: closed - Opened by palomnyk almost 6 years ago

#89 - double/int values for seq read counts changed to long

Pull Request - State: closed - Opened by mikesioda almost 6 years ago

#88 - Delete README.md

Pull Request - State: closed - Opened by palomnyk almost 6 years ago

#87 - Normalization Bug - Double Updated to Long

Pull Request - State: closed - Opened by mikesioda almost 6 years ago

#85 - Release v0.9.5-beta script updates

Pull Request - State: closed - Opened by mikesioda almost 6 years ago

#84 - Release v0.9.5-beta bug fixes

Pull Request - State: closed - Opened by mikesioda almost 6 years ago

#83 - BioLockJ Release v0.9-5-beta

Pull Request - State: closed - Opened by mikesioda almost 6 years ago

#82 - webapp update

Pull Request - State: closed - Opened by palomnyk almost 6 years ago

#81 - JavaDoc Updates

Pull Request - State: closed - Opened by mikesioda almost 6 years ago

#80 - Update Config project prefix to pipeline

Pull Request - State: closed - Opened by mikesioda almost 6 years ago

#79 - Misc Enhancements

Pull Request - State: closed - Opened by mikesioda almost 6 years ago

#78 - Option prefix

Pull Request - State: closed - Opened by IvoryC almost 6 years ago

#77 - Docker Updates + QIIME Alpha Metrics Changes

Pull Request - State: closed - Opened by mikesioda almost 6 years ago

#76 - Fix start-up script.

Pull Request - State: closed - Opened by palomnyk almost 6 years ago

#75 - Error logger clean up

Pull Request - State: closed - Opened by palomnyk almost 6 years ago

#74 - Docker Qiime Alternate DB Updates

Pull Request - State: closed - Opened by mikesioda almost 6 years ago

#73 - Docker Bug Fix

Pull Request - State: closed - Opened by mikesioda almost 6 years ago

#72 - Release ready

Pull Request - State: closed - Opened by mikesioda almost 6 years ago

#71 - BioLockJ Release v0.9.v-beta

Pull Request - State: closed - Opened by mikesioda almost 6 years ago

#70 - Bug Fixes

Pull Request - State: closed - Opened by mikesioda almost 6 years ago

#69 - R Script edits

Pull Request - State: closed - Opened by mikesioda almost 6 years ago

#68 - Dev feb rmods2

Pull Request - State: closed - Opened by IvoryC almost 6 years ago

#67 - Curate configs

Pull Request - State: closed - Opened by IvoryC almost 6 years ago

#66 - Remove SLIMM

Pull Request - State: closed - Opened by mikesioda almost 6 years ago

#65 - Bug fix + cleanup

Pull Request - State: closed - Opened by mikesioda almost 6 years ago

#64 - Add @web_desc <module name> tags to module descriptions.

Pull Request - State: closed - Opened by palomnyk almost 6 years ago

#63 - Add @web_desc <module name> tags to module descriptions.

Pull Request - State: closed - Opened by palomnyk almost 6 years ago