Ecosyste.ms: Issues

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

GitHub / borevitzlab/timestreamlib issues and pull requests

#180 - Bump pyyaml from 3.11 to 5.4

Pull Request - State: closed - Opened by dependabot[bot] almost 4 years ago - 2 comments
Labels: dependencies

#179 - Bump pillow from 2.6.1 to 8.1.1

Pull Request - State: closed - Opened by dependabot[bot] almost 4 years ago - 2 comments
Labels: dependencies

#178 - Bump pillow from 2.6.1 to 6.2.0

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

#177 - Review PlantCV code and report back

Issue - State: open - Opened by TimeScience over 8 years ago

#176 - Resize naming busted

Issue - State: open - Opened by Joelgranados about 9 years ago

#175 - We cannot repeat pipe component in timestream.yml

Issue - State: closed - Opened by Joelgranados over 9 years ago

#174 - Add "surface coverage" and "stockiness" to output phenotypes

Issue - State: open - Opened by TimeScience over 9 years ago
Labels: enhancement

#172 - Put info on AUDIT codes and code version into JSON @ start of audit file

Issue - State: closed - Opened by TimeScience over 9 years ago - 1 comment
Labels: enhancement

#171 - Add Code version Date And other metadata to Audit file

Issue - State: open - Opened by TimeScience over 9 years ago - 2 comments
Labels: enhancement

#170 - CSV output files needs to have consistent headers

Issue - State: closed - Opened by TimeScience over 9 years ago - 1 comment
Labels: bug

#169 - Change output path of CSV files to "Results" folder in root

Issue - State: closed - Opened by TimeScience over 9 years ago - 1 comment

#168 - Fix output names of CSV files

Issue - State: closed - Opened by TimeScience over 9 years ago - 1 comment
Labels: bug

#166 - The pipeline examples are wrong

Issue - State: open - Opened by Joelgranados over 9 years ago

#165 - The csv component should add new headers

Issue - State: closed - Opened by Joelgranados over 9 years ago - 1 comment
Labels: bug

#164 - Notify Tim and Riyan once the pipeline is running again on BVZ0036

Issue - State: closed - Opened by TimeScience over 9 years ago - 1 comment
Labels: 0 - Backlog

#163 - Install timestreamlib in new NCI vm

Issue - State: closed - Opened by Joelgranados over 9 years ago - 1 comment

#162 - WHY WERE SO MANY "BAD" POT NUMBERS THE SAME?

Issue - State: closed - Opened by Joelgranados over 9 years ago - 1 comment

#160 - Output CSV needs correct pot numbers - THIS IS A BIG DEAL AND NEEDS TO BE FIXED ASAP

Issue - State: closed - Opened by TimeScience about 10 years ago - 4 comments
Labels: bug

#159 - numeric values in ~fullres-audit.csv file should be defined

Issue - State: closed - Opened by TimeScience about 10 years ago - 3 comments
Labels: bug

#158 - exif2timestream not working on phenocam server

Issue - State: closed - Opened by TimeScience about 10 years ago - 2 comments

#157 - sha aec0099 causes the pipeline GUI to freeze

Issue - State: closed - Opened by kdm9 about 10 years ago - 1 comment
Labels: bug

#156 - Joel's latest changes

Pull Request - State: closed - Opened by kdm9 about 10 years ago - 1 comment

#155 - Fix bugs and warnings

Pull Request - State: closed - Opened by kdm9 about 10 years ago - 1 comment

#154 - Fix the copyright and licence details everywhere

Pull Request - State: closed - Opened by kdm9 about 10 years ago - 1 comment

#153 - Remove the need for image files in tests.

Pull Request - State: closed - Opened by Joelgranados about 10 years ago - 1 comment

#152 - Add tests that address strangeness in images

Issue - State: closed - Opened by Joelgranados about 10 years ago - 2 comments

#151 - Make tests images as small as possible

Issue - State: closed - Opened by Joelgranados about 10 years ago - 3 comments

#150 - Pipeline test and Misc fixes

Pull Request - State: closed - Opened by Joelgranados about 10 years ago - 7 comments

#149 - [WIP] Inline image resize-on-writer

Pull Request - State: closed - Opened by kdm9 about 10 years ago - 8 comments

#148 - Add scikit image dependencies to preinstall_requirements.txt

Pull Request - State: closed - Opened by kdm9 about 10 years ago - 6 comments

#147 - pipeline GUI. Be able to paste path to text areas

Issue - State: open - Opened by Joelgranados about 10 years ago

#146 - in configuration file outstreams is redundant

Issue - State: open - Opened by Joelgranados about 10 years ago - 1 comment

#145 - Windows error on resize

Issue - State: open - Opened by Joelgranados about 10 years ago - 3 comments

#144 - Image causing segmentation fault

Issue - State: open - Opened by Joelgranados about 10 years ago - 7 comments

#143 - Create automatic help and documentation.

Pull Request - State: closed - Opened by Joelgranados about 10 years ago - 8 comments

#142 - Add more characters to the derandomizer output

Issue - State: open - Opened by Joelgranados about 10 years ago

#141 - Repo/folder for all our 'pipeline.yml's

Issue - State: closed - Opened by kdm9 about 10 years ago

#140 - Pipeline GUI/CLI seperation?

Issue - State: closed - Opened by kdm9 about 10 years ago - 3 comments
Labels: question

#139 - Add a resizeAndWrite component

Issue - State: closed - Opened by Joelgranados about 10 years ago - 3 comments
Labels: bug

#138 - Miscellaneous commits to add to next

Pull Request - State: closed - Opened by Joelgranados about 10 years ago - 6 comments

#137 - Check to see for exact options on the pipecompoents

Issue - State: open - Opened by Joelgranados about 10 years ago

#136 - Parallelised execution in run_pipeline.py

Issue - State: closed - Opened by kdm9 about 10 years ago - 7 comments

#135 - derandomizer no longer works! please fix asap

Issue - State: closed - Opened by TimeScience about 10 years ago - 1 comment
Labels: bug

#134 - derandomizer - uncommitted changes on phenocam server

Issue - State: closed - Opened by TimeScience about 10 years ago - 2 comments

#133 - Audit should be a separate component

Issue - State: open - Opened by Joelgranados about 10 years ago

#130 - Each pipecomponent should log in the parent

Issue - State: closed - Opened by Joelgranados about 10 years ago - 1 comment

#129 - catch error on image read in the parent class

Issue - State: closed - Opened by Joelgranados about 10 years ago - 2 comments

#128 - initial probably broken resizer pipecomponent

Pull Request - State: closed - Opened by kdm9 about 10 years ago - 2 comments

#127 - Fix many many code quality issues.

Pull Request - State: closed - Opened by kdm9 about 10 years ago - 11 comments

#126 - Merge timstreamCLI repo

Pull Request - State: closed - Opened by kdm9 about 10 years ago - 2 comments

#125 - Color card not being detected in images of GC05L experiment 36.

Issue - State: closed - Opened by Joelgranados about 10 years ago - 8 comments

#124 - pipeline - Need full run

Issue - State: closed - Opened by TimeScience about 10 years ago - 3 comments

#123 - derandomizer - Each pot needs the plant ID written on it

Issue - State: closed - Opened by TimeScience over 10 years ago - 4 comments
Labels: bug

#122 - derandomizer - Need to be able to close without resizing.

Issue - State: closed - Opened by TimeScience over 10 years ago - 3 comments

#121 - Resizer code refactoring and cleanup

Issue - State: closed - Opened by TimeScience over 10 years ago - 4 comments
Labels: enhancement

#120 - derandomizer - !!! ASAP - Does not work

Issue - State: closed - Opened by TimeScience over 10 years ago - 6 comments
Labels: bug

#119 - derandomzier - multi select for loading fils

Issue - State: open - Opened by TimeScience over 10 years ago - 1 comment
Labels: bug, enhancement

#118 - derandomizer - Should return to root of previously selected folder

Issue - State: closed - Opened by TimeScience over 10 years ago - 3 comments
Labels: bug

#117 - derandomizer - Need feedback from program after selecting timestream

Issue - State: open - Opened by TimeScience over 10 years ago - 1 comment
Labels: bug

#116 - Location for mislaneous scripts

Issue - State: closed - Opened by chuong over 10 years ago - 2 comments

#115 - Pipeline in Windows is stopped by a Json error

Issue - State: closed - Opened by Joelgranados over 10 years ago - 4 comments

#114 - Derandui.py is displaying Timestream even though it does not have an ipm

Issue - State: closed - Opened by Joelgranados over 10 years ago - 1 comment

#113 - run-pipeline needs a GUI

Issue - State: closed - Opened by Joelgranados over 10 years ago - 3 comments

#112 - Benchmarking the pipeline

Issue - State: closed - Opened by kdm9 over 10 years ago - 4 comments

#111 - RTFD.org for docs

Issue - State: closed - Opened by kdm9 over 10 years ago

#110 - Where do we put installation documenation?

Issue - State: closed - Opened by Joelgranados over 10 years ago - 2 comments
Labels: question

#109 - Timestreamlib on windows

Issue - State: closed - Opened by Joelgranados over 10 years ago - 6 comments

#108 - Add intensity adjustment due to field of view angle

Issue - State: closed - Opened by chuong over 10 years ago - 1 comment

#106 - What is compactness?

Issue - State: closed - Opened by Joelgranados over 10 years ago - 4 comments

#105 - Allow arbitrary fields to be printed in the resulting derandomization timestream

Issue - State: closed - Opened by Joelgranados over 10 years ago - 1 comment
Labels: enhancement

#104 - We need to decide on workflow and which data is used for processing, outputs, etc

Issue - State: closed - Opened by TimeScience over 10 years ago - 1 comment
Labels: needsDesignDecision

#103 - Pipeline should output JPG's not PNGs

Issue - State: closed - Opened by TimeScience over 10 years ago - 2 comments
Labels: bug

#101 - Rename pipeline_demo

Issue - State: closed - Opened by kdm9 over 10 years ago - 1 comment

#100 - Are we using timestream/manipulate/netcdf.py?

Issue - State: closed - Opened by Joelgranados over 10 years ago - 4 comments
Labels: question

#98 - Eccentricity.

Issue - State: open - Opened by Joelgranados over 10 years ago - 2 comments
Labels: question

#96 - We should be able to log to a file

Issue - State: closed - Opened by Joelgranados over 10 years ago - 3 comments
Labels: enhancement

#95 - Log statements in pipecomponents are not making it to stderr.

Issue - State: closed - Opened by Joelgranados over 10 years ago - 7 comments
Labels: wontfix

#94 - Derandomization - output formatting

Issue - State: closed - Opened by TimeScience over 10 years ago - 4 comments
Labels: enhancement

#93 - The derandomization GUI does not refresh the pot IDs consistently

Issue - State: closed - Opened by Joelgranados over 10 years ago - 1 comment
Labels: bug

#90 - Make sure Timestamps are correct for all output datasets

Issue - State: closed - Opened by TimeScience over 10 years ago - 6 comments
Labels: bug

#89 - Correct timestamp format for CSV outputs

Issue - State: closed - Opened by TimeScience over 10 years ago - 27 comments
Labels: bug

#85 - Json changes int dictionary indexes to string

Issue - State: open - Opened by Joelgranados over 10 years ago - 6 comments
Labels: leftToFester, needsDesignDecision

#83 - Change in image orientation invalidates configuration coordinates

Issue - State: closed - Opened by Joelgranados over 10 years ago - 15 comments
Labels: bug

#76 - Calculate average color of plant

Issue - State: closed - Opened by Joelgranados over 10 years ago - 2 comments
Labels: enhancement

#67 - UI code repo

Issue - State: closed - Opened by kdm9 over 10 years ago - 6 comments
Labels: question

#65 - CSV files should have global ids

Issue - State: closed - Opened by Joelgranados over 10 years ago - 1 comment
Labels: bug, needsDesignDecision

#61 - timestream videoiser

Issue - State: closed - Opened by kdm9 over 10 years ago - 6 comments
Labels: enhancement

#60 - Add statistics (area, perimeter...) list to help options.

Issue - State: open - Opened by Joelgranados over 10 years ago - 2 comments
Labels: enhancement

#54 - We should have logic to extract information from the path

Issue - State: open - Opened by Joelgranados over 10 years ago - 3 comments
Labels: question

#49 - make automated generation of outputs not overwrite

Issue - State: closed - Opened by Joelgranados over 10 years ago - 3 comments
Labels: bug

#45 - Licence/openness/stealing of ideas

Issue - State: closed - Opened by kdm9 over 10 years ago - 2 comments
Labels: question, needsDesignDecision

#35 - jenkins build system for nightly builds, packaging & runs

Issue - State: closed - Opened by kdm9 over 10 years ago - 1 comment
Labels: enhancement, leftToFester

#34 - Fix case sensitivity of _data folders

Issue - State: closed - Opened by kdm9 over 10 years ago
Labels: bug, unimportant

#32 - Output folder paths need to be timestream standards compliant

Issue - State: closed - Opened by TimeScience over 10 years ago - 8 comments
Labels: bug

#13 - Write-on-update .data members

Issue - State: closed - Opened by kdm9 over 10 years ago - 8 comments
Labels: enhancement, handwaving