Ecosyste.ms: Issues

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GitHub / saalfeldlab/paintera-conversion-helper issues and pull requests

#51 - ci: build for windows

Pull Request - State: open - Opened by cmhulbert 4 months ago

#50 - Build/jdk21

Pull Request - State: closed - Opened by cmhulbert 6 months ago

#49 - fix: packaging fix, explicit verions for dependencies

Pull Request - State: closed - Opened by cmhulbert over 2 years ago

#48 - Migrate Dependency Versions

Pull Request - State: closed - Opened by cmhulbert over 2 years ago

#47 - [to-scalar] Allow to export a specified label ID

Issue - State: open - Opened by igorpisarev over 4 years ago

#46 - [to-scalar] Add option to generate a scale pyramid

Issue - State: open - Opened by igorpisarev over 4 years ago

#45 - Meshes don't work on Windows for imported label dataset on NFS

Issue - State: closed - Opened by igorpisarev over 4 years ago - 2 comments

#44 - Make inputs more flexible

Issue - State: open - Opened by hanslovsky almost 5 years ago
Labels: enhancement

#43 - N5 filesystem relative

Pull Request - State: closed - Opened by hanslovsky almost 5 years ago - 1 comment

#42 - Add cluster startup scripts

Pull Request - State: closed - Opened by igorpisarev about 5 years ago - 5 comments

#41 - Allow to use existing s0 dataset as raw data input

Pull Request - State: closed - Opened by igorpisarev about 5 years ago

#40 - Conversion of raw data fails on the cluster

Issue - State: closed - Opened by igorpisarev about 5 years ago

#39 - Fix annotation and meta info issues in shaded jars

Pull Request - State: closed - Opened by hanslovsky about 5 years ago - 2 comments

#38 - N5 Label Block Lookup annotations are not assembled correctly into shaded Jar

Issue - State: closed - Opened by hanslovsky about 5 years ago
Labels: bug

#37 - Allow the same container for input and output

Pull Request - State: closed - Opened by hanslovsky about 5 years ago

#34 - Some reformulation

Pull Request - State: closed - Opened by constantinpape about 5 years ago - 3 comments

#33 - Paintera convert

Pull Request - State: closed - Opened by hanslovsky about 5 years ago - 12 comments

#32 - Default to n5 for label block lookup backend and add --use-file-based-label-block-lookup option

Pull Request - State: closed - Opened by hanslovsky about 5 years ago
Labels: enhancement

#31 - Add tool to fix broken Paintera project

Issue - State: open - Opened by oflynne about 5 years ago

#30 - Add options to consider fragment-segment-assignment

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

#29 - Consider fragment-segment-assignment when extracting into scalar

Issue - State: closed - Opened by hanslovsky over 5 years ago
Labels: enhancement

#28 - Extract to scalar OOM error

Issue - State: open - Opened by hanslovsky over 5 years ago - 4 comments
Labels: bug

#27 - Use N5 as label block lookup by default

Issue - State: closed - Opened by hanslovsky over 5 years ago - 1 comment
Labels: enhancement

#26 - Update CLI with more flexible argument groups in picocli 4.0.0

Issue - State: closed - Opened by hanslovsky over 5 years ago
Labels: enhancement

#25 - Create paintera-conversion-helper-cmd python package for distribution to PyPI

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

#24 - Add a --reasonable-deafults (or similar) flag

Issue - State: open - Opened by hanslovsky over 5 years ago - 2 comments
Labels: enhancement, feature request

#23 - Add command line converter to convert back to scalar data

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

#22 - Convert highest resolution dataset of paintera label dataset to uint64 (hdf5 or n5)

Issue - State: closed - Opened by hanslovsky over 5 years ago - 1 comment
Labels: enhancement

#21 - Only warn if raw output dataset exists

Issue - State: open - Opened by hanslovsky over 5 years ago - 1 comment

#20 - Dump dependencies to speed up label conversion

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

#19 - Add first simple test

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

#18 - Add simple test cases

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

#17 - label conversion jobs fail

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

#16 - Add channel support

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

#15 - Add support for channel data

Issue - State: closed - Opened by hanslovsky almost 6 years ago - 1 comment

#14 - fix argument order that led to 'degenerate output dimensions' error

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

#13 - Store absolute root path for n5-filesystem label-to-block-mapping

Issue - State: closed - Opened by constantinpape almost 6 years ago - 2 comments
Labels: bug

#12 - Populate downsample block sizes appropriately.

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

#11 - wrong block-size in downsampled multi-set labels

Issue - State: closed - Opened by axtimwalde almost 6 years ago - 3 comments

#10 - maxId in labels is exported as a double but should be integer

Issue - State: open - Opened by axtimwalde almost 6 years ago - 2 comments

#9 - Need admin access for this repo

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

#8 - Add option to specify resolution and offset

Issue - State: closed - Opened by hanslovsky over 6 years ago
Labels: enhancement

#7 - Add option to downscale labels as IntegerType/winner takes all

Issue - State: closed - Opened by hanslovsky over 6 years ago
Labels: enhancement, feature request

#6 - Cannot convert dataset without downsampling

Issue - State: closed - Opened by hanslovsky over 6 years ago
Labels: bug

#5 - Add options for users to override settings on a per-dataset basis

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

#4 - Add install and run script like in paintera

Issue - State: closed - Opened by hanslovsky over 6 years ago - 1 comment

#3 - Add option to revert array attributes when copying

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

#2 - Do not call N5ConverterSpark.main

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

#1 - Add option to convert entire N5 container

Issue - State: closed - Opened by hanslovsky over 6 years ago - 2 comments
Labels: enhancement