COG | consolidated COG database file for tools like DIAMOND

 by   transcript Python Version: Current License: No License

kandi X-RAY | COG Summary

kandi X-RAY | COG Summary

COG is a Python library. COG has no bugs, it has no vulnerabilities and it has low support. However COG build file is not available. You can download it from GitHub.

When annotating a microbial metagenome or metatranscriptome, organism annotations are often not enough - sometimes, functional annotations are also desired. One useful database for functional annotation of genomes is the Clusters of Orthologous Groups (COG), run by NCBI (These COG files can be downloaded directly from NCBI's FTP site (ftp://ftp.ncbi.nlm.nih.gov/pub/COG/COG2014/data/), but they aren't immediately structured in a searchable form if using a high-speed aligner like DIAMOND. This repo contains a few quick scripts to get a workable merged database file for use as a DIAMOND reference.
Support
    Quality
      Security
        License
          Reuse

            kandi-support Support

              COG has a low active ecosystem.
              It has 4 star(s) with 5 fork(s). There are no watchers for this library.
              OutlinedDot
              It had no major release in the last 6 months.
              There are 2 open issues and 0 have been closed. There are no pull requests.
              It has a neutral sentiment in the developer community.
              The latest version of COG is current.

            kandi-Quality Quality

              COG has 0 bugs and 0 code smells.

            kandi-Security Security

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

            kandi-License License

              COG does not have a standard license declared.
              Check the repository for any license declaration and review the terms closely.
              OutlinedDot
              Without a license, all rights are reserved, and you cannot use the library in your applications.

            kandi-Reuse Reuse

              COG releases are not available. You will need to build from source code and install.
              COG has no build file. You will be need to create the build yourself to build the component from source.
              Installation instructions are not available. Examples and code snippets are available.
              It has 141 lines of code, 1 functions and 2 files.
              It has low code complexity. Code complexity directly impacts maintainability of the code.

            Top functions reviewed by kandi - BETA

            kandi has reviewed COG and discovered the below as its top functions. This is intended to give you an instant insight into COG implemented functionality, and help decide if they suit your requirements.
            • Find a usage term .
            Get all kandi verified functions for this library.

            COG Key Features

            No Key Features are available at this moment for COG.

            COG Examples and Code Snippets

            No Code Snippets are available at this moment for COG.

            Community Discussions

            QUESTION

            How can i fix Task was destroyed but it is pending?
            Asked 2022-Apr-05 at 01:02

            I have a problem. So I have a task that runs every time when a user writes a chat message on my discord server - it's called on_message. So my bot has many things to do in this event, and I often get this kind of error:

            ...

            ANSWER

            Answered 2022-Mar-20 at 16:25

            IODKU lets you eliminate the separate SELECT:

            Source https://stackoverflow.com/questions/71542947

            QUESTION

            "RuntimeWarning: coroutine 'BotBase.load_extension' was never awaited" after updating discord.py
            Asked 2022-Mar-19 at 04:09

            The discord bot I made a year ago and deployed to Heroku has worked until now. However, after changing some cogs and updating python to version 3.9.10, I get the following warning in the Heroku logs:

            ...

            ANSWER

            Answered 2022-Mar-18 at 18:39
            Explanation

            As of discord.py version 2.0, Bot.load_extension is now a coroutine and has to be awaited. This is to allow Cog subclasses to override cog_unload with a coroutine.

            Code

            In your client's file:

            Source https://stackoverflow.com/questions/71504627

            QUESTION

            discord.py error handling for every command in a cog
            Asked 2022-Mar-14 at 20:51

            I would like to add some error handling to my cog, as all the commands require an argument of a user. However, the only way I have found to do this would require each command to have its own error handle, which is very time consuming as I have 50+ commands all with this format.

            If possible, I would like to be able to create an error handler, that only works for the commands in that one cog. How would I go about this?

            Example commands:

            ...

            ANSWER

            Answered 2022-Mar-14 at 20:51

            Cog-specific error handling can be done by overriding cog_command_error in the cog class:

            Source https://stackoverflow.com/questions/71473890

            QUESTION

            How to add cooldown mapping to users who reacted first?
            Asked 2022-Mar-03 at 12:39

            Im currently working on a cart manager where users has a chance of a giveaway prize (First come first serve). Basically I will automatically post some embeds and the person who reacts first will get the prize and a message written in DM's from the bot. The user who got the prize first will get a cooldown for 5 minutes (the reason of this is that the same user should not be able to get a second prize within 5 minutes)

            I have written something like this:

            ...

            ANSWER

            Answered 2022-Mar-03 at 12:39

            The code you have shows how to have a common ratelimit between commands in a cog, to have a cooldown on the on_raw_reaction_add event you need a different approach.

            Source https://stackoverflow.com/questions/71322042

            QUESTION

            How do i grab the document name from firebase
            Asked 2022-Feb-25 at 11:05

            I have using this component to push data out, however i can not grab the document name i.e. "sampleCloudFunction" under CloudFunctionMonitor(please see picture) from the database and display it

            docRef.id does not work, i am not looking for the ID but the actual name of the sub document?

            ...

            ANSWER

            Answered 2022-Feb-25 at 10:58

            The document data does not contain it's ID. You'll have to explicitly add it as shown below:

            Source https://stackoverflow.com/questions/71264692

            QUESTION

            Nextcord Slash Commands
            Asked 2022-Jan-23 at 17:46

            I've heard that nextcord has now slash commands! That's great, and this is why I want to add them in my bot. I've already watched YouTube tutorials, but, for some reason, it doesn't work. This is my main.py file

            ...

            ANSWER

            Answered 2022-Jan-16 at 18:20

            I tried your code and it works for me. Maybe this will fix it

            1. if you are using the event "on_interaction"

            Source https://stackoverflow.com/questions/70732110

            QUESTION

            Passing a list of arguments into a function in R Shiny
            Asked 2022-Jan-18 at 08:24

            Note: I recognize that similar questions about passing function arguments as a list have been asked previously, but most solutions rely on using do.call ahead of the function name and I have not had any luck with that approach.

            I have a simple dashboard with two boxes on it. I would like to store the dropdown menu parameters as a list to be used in other boxes. The specific parameters I would like to store are: icon, and width.

            Below is a working version of the application without the dropdown parameters stored in a list:

            ...

            ANSWER

            Answered 2022-Jan-18 at 08:20

            QUESTION

            AWS CDK CodePipeline add a stage between Source and Build
            Asked 2022-Jan-06 at 10:57

            I followed the Continuous integration and delivery (CI/CD) using CDK Pipelines guide to implement a CodePipeline. I would like to know how to add a stage to my pipeline in CDK that will run after the Source stage but before the Build stage.

            This is my pipeline code:

            ...

            ANSWER

            Answered 2022-Jan-06 at 10:57

            So, the way CDK figures out where to put the actions you create, is by their inputs and outputs. To add an action between the source and the build, you would need to create an action (or a sequence of actions) that take the source output as input, and produce an output that's used by the synth step as input.

            Here's an example in Python, it works the same way in TS:

            Source https://stackoverflow.com/questions/70601017

            QUESTION

            Discord.py doesn't play audio
            Asked 2021-Dec-30 at 12:52

            Basically I made a bot that just simply plays music, I made a command that plays the song so you do ?play [url of song] and it will play, now I'm working on a ?search command that you can enter the keyword and it will play the song, after alot of errors I got it to find the songs when you typed them. But it doesn't stream the sound over the audio (but it does though when you use the ?play command) This is my code:

            ...

            ANSWER

            Answered 2021-Dec-30 at 12:52

            Don't know the answer but from the things you said and what the console sent, I think it downloaded the webpage, not the video.

            If that the case there's no way of playing a webpage so this can be the issue.

            PS: I sent an answer, not a comment since I dont have enough reputation.

            Source https://stackoverflow.com/questions/70523680

            QUESTION

            Aligning all sub-menu items in dropMenu to the right and hiding drop arrow
            Asked 2021-Dec-22 at 21:59

            I have an application which uses box::dropdownMenu to render a dropdown menu which the user will use to set plot options. I'm able to implement this functionality without any issue, but I would like to do two additional things.

            Is it possible to: (1) Hide the arrow to the right of the cog-icon? (2) On the dropdown menu, is it possible to keep the text left-alligned, but have the radio buttons be right aligned?

            Current State:

            Desired End Result:

            Code:

            ...

            ANSWER

            Answered 2021-Dec-22 at 21:59
            1. To remove the arrow, one should change style to something other than the default. You can use fill or bordered for example.

            Source https://stackoverflow.com/questions/70453797

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

            Vulnerabilities

            No vulnerabilities reported

            Install COG

            You can download it from GitHub.
            You can use COG 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 .
            Find more information at:

            Find, review, and download reusable Libraries, Code Snippets, Cloud APIs from over 650 million Knowledge Items

            Find more libraries
            CLONE
          • HTTPS

            https://github.com/transcript/COG.git

          • CLI

            gh repo clone transcript/COG

          • sshUrl

            git@github.com:transcript/COG.git

          • Stay Updated

            Subscribe to our newsletter for trending solutions and developer bootcamps

            Agree to Sign up and Terms & Conditions

            Share this Page

            share link