tombo | tools primarily for the identification | Genomics library

by nanoporetech Python Version: 1.5.1 License: Non-SPDX

X-Ray Key Features Code Snippets Community Discussions(1)Vulnerabilities Install Support

kandi X-RAY | tombo Summary

tombo is a Python library typically used in Artificial Intelligence, Genomics applications. tombo has no bugs, it has no vulnerabilities, it has build file available and it has low support. However tombo has a Non-SPDX License. You can install using 'pip install tombo' or download it from GitHub, PyPI.

Tombo is a suite of tools primarily for the identification of modified nucleotides from raw nanopore sequencing data.

Support

Quality

Security

License

Reuse

Support

tombo has a low active ecosystem.

It has 197 star(s) with 54 fork(s). There are 41 watchers for this library.

It had no major release in the last 12 months.

There are 110 open issues and 308 have been closed. On average issues are closed in 21 days. There are 2 open pull requests and 0 closed requests.

It has a neutral sentiment in the developer community.

The latest version of tombo is 1.5.1

Quality

tombo has 0 bugs and 0 code smells.

Security

tombo has no vulnerabilities reported, and its dependent libraries have no vulnerabilities reported.

tombo code analysis shows 0 unresolved vulnerabilities.

There are 0 security hotspots that need review.

License

tombo 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.

Reuse

tombo releases are available to install and integrate.

Deployable package is available in PyPI.

Build file is available. You can build the component from source.

tombo saves you 5972 person hours of effort in developing the same functionality from scratch.

It has 12463 lines of code, 491 functions and 19 files.

It has high code complexity. Code complexity directly impacts maintainability of the code.

Top functions reviewed by kandi - BETA

kandi has reviewed tombo and discovered the below as its top functions. This is intended to give you an instant insight into tombo implemented functionality, and help decide if they suit your requirements.

Generate ROC plot
Return a list of all readcs
Return the coverage of the given chrm and strand
Perform clustering of the most significant signal
Work for resquiggle reads
Resquilt a read
Open debugging
Determine the read start of a given normal signal
Resquiggle worker
Plots the corrected correction plot
Parse the alt_base model file
Creates an argparse argument parser
Return argparse argument parser
Annotate a fastq file with read_ids
Prepare queue for processing
Prepare a fastq slot worker for reading
Main test loop
Return argument parser
Resquiggle plot
Deprecated function to plot multi - chromosome correction
Return a function that returns a summary of the progress queues
Run test
Plot a single read
Get the list of namedtuples
Helper function for io_and_thread
Main function for event resquiggle

Get all kandi verified functions for this library.

tombo Key Features

No Key Features are available at this moment for tombo.

tombo Examples and Code Snippets

No Code Snippets are available at this moment for tombo.

Community Discussions

Trending Discussions on tombo

How to specify an individual log format for Tomcat's console-log using java.util.logging.SimpleFormatter

QUESTION

How to specify an individual log format for Tomcat's console-log using java.util.logging.SimpleFormatter

Asked 2019-Jun-28 at 07:38

I've several webapps deployed on my Tomcat-installation and I'm using swallowOutput="true" in my context.xml in order to achieve different 'per-webapp'-log-outputs, not just one big "catalina.out" together for all webapps. That work's fine. Therefore, I'm using a logging.properties-file for each webapp.

The webapps are generating log output by using basic System.out.println.

Now, I would like to define a very simple log-format to be generated by Tomcat by specifying

...

ANSWER

Answered 2019-Jun-28 at 07:38

I tested some variations on Tomcat 8.5.15 and found it seemes to be importent to also set the org.apache.juli.FileHandler.formatter in the per-webapp logging.properties.

So this is my full resulting per-webapp logging.properties:

Source https://stackoverflow.com/questions/56716302

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

Vulnerabilities

No vulnerabilities reported

Install tombo

You can install using 'pip install tombo' or download it from GitHub, PyPI.
You can use tombo like any standard Python library. You will need to make sure that you have a development environment consisting of a Python distribution including header files, a compiler, pip, and git installed. Make sure that your pip, setuptools, and wheel are up to date. When using pip it is generally recommended to install packages in a virtual environment to avoid changes to the system.

Support

For any new features, suggestions and bugs create an issue on GitHub. If you have any questions check and ask questions on community page Stack Overflow .

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