jvarkit | Java utilities for Bioinformatics | Genomics library

 by   lindenb Java Version: 2021.10.13 License: Non-SPDX

kandi X-RAY | jvarkit Summary

kandi X-RAY | jvarkit Summary

jvarkit is a Java library typically used in Artificial Intelligence, Genomics applications. jvarkit has no bugs, it has no vulnerabilities, it has build file available and it has low support. However jvarkit has a Non-SPDX License. You can download it from GitHub.

Java utilities for Bioinformatics.

            kandi-support Support

              jvarkit has a low active ecosystem.
              It has 416 star(s) with 128 fork(s). There are 26 watchers for this library.
              It had no major release in the last 12 months.
              There are 49 open issues and 171 have been closed. On average issues are closed in 56 days. There are 1 open pull requests and 0 closed requests.
              It has a neutral sentiment in the developer community.
              The latest version of jvarkit is 2021.10.13

            kandi-Quality Quality

              jvarkit has 0 bugs and 0 code smells.

            kandi-Security Security

              jvarkit has no vulnerabilities reported, and its dependent libraries have no vulnerabilities reported.
              jvarkit code analysis shows 0 unresolved vulnerabilities.
              There are 0 security hotspots that need review.

            kandi-License License

              jvarkit has a Non-SPDX License.
              Non-SPDX licenses can be open source with a non SPDX compliant license, or non open source licenses, and you need to review them closely before use.

            kandi-Reuse Reuse

              jvarkit releases are available to install and integrate.
              Build file is available. You can build the component from source.
              jvarkit saves you 200267 person hours of effort in developing the same functionality from scratch.
              It has 200751 lines of code, 9348 functions and 1018 files.
              It has high code complexity. Code complexity directly impacts maintainability of the code.

            Top functions reviewed by kandi - BETA

            kandi has reviewed jvarkit and discovered the below as its top functions. This is intended to give you an instant insight into jvarkit implemented functionality, and help decide if they suit your requirements.
            • Creates default ontology tree .
            • moves advance from current state
            • Finish writing the VCF file .
            • Plots the Sashimi image .
            • Gets the VepPredictions from the VEP .
            • Writes this element to an XML stream .
            • Output CGI
            • Main entry point .
            • Runs VCF filter .
            • Repaint the canvas .
            Get all kandi verified functions for this library.

            jvarkit Key Features

            No Key Features are available at this moment for jvarkit.

            jvarkit Examples and Code Snippets

            No Code Snippets are available at this moment for jvarkit.

            Community Discussions

            Trending Discussions on jvarkit


            github Page build failure: timeout
            Asked 2019-Dec-17 at 18:35

            I've been trying to push my code to github for 24H00. Everytime, I receive the following message ( https://github.com/lindenb/jvarkit/runs/352148142 )

            The page build failed for the master branch with the following error:

            Page build timed out. Please try again later. For more information, see https://help.github.com/en/github/working-with-github-pages/troubleshooting-jekyll-build-errors-for-github-pages-sites#troubleshooting-build-errors.

            unless I'm wrong, there is no indication errors like 'timeout' in the URLs above. Furthermore, the github status is ok.

            The pages are compiled from a docs directory: it contains 348 files (2.5 M). The pages used to be quickly compiled before I added a new file in docs/

            How can I fix this problem ? Where can I find any indication about the quotas (time / size) for the github pages ?




            Answered 2019-Dec-17 at 18:35

            The error message was misleading.

            There was just an error in the markdown format (backticks missing in a code section).

            Source https://stackoverflow.com/questions/59370973

            Community Discussions, Code Snippets contain sources that include Stack Exchange Network


            No vulnerabilities reported

            Install jvarkit

            You can download it from GitHub.
            You can use jvarkit like any standard Java library. Please include the the jar files in your classpath. You can also use any IDE and you can run and debug the jvarkit component as you would do with any other Java program. Best practice is to use a build tool that supports dependency management such as Maven or Gradle. For Maven installation, please refer maven.apache.org. For Gradle installation, please refer gradle.org .


            Documentation is available at: [http://lindenb.github.io/jvarkit/](http://lindenb.github.io/jvarkit/).
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