shepard | Automating the creation of batch processing workflows | Continuous Deployment library

 by   ginkgobioworks Python Version: Current License: MIT

kandi X-RAY | shepard Summary

kandi X-RAY | shepard Summary

shepard is a Python library typically used in Devops, Continuous Deployment, Docker applications. shepard has no bugs, it has no vulnerabilities, it has a Permissive License and it has low support. However shepard build file is not available. You can download it from GitHub.

Shepard is a one-stop shop to turn a container into a highly scalable easy to manage workflow in AWS. It is a machine that makes machines that execute your code. For more background on the project and some of its aims feel free to look through the following link on the GinkgoBits blog from June of 2020 about the project: Shepard is a CloudFormation template and an accompanying custom made CLI. The Shepard architecture allows for automatic, scalable and easy execution of arbitrary container code for batch workflows. Running in a standard account with no other lambdas in it the architecture can turn over 17,500 uploads to an S3 bucket into batch jobs a minute and can queue to over 120,000 jobs simultaneously at any one time. This means it takes a little over 57 minutes to turn 1,000,000 uploads into AWS batch jobs. It provides options to create AWS EFS and/or high-performance AWS Lustre file systems and automount them to worker containers and has options to securely store and interact with authentication tokens and other sensitive cryptomatter stored in AWS Secrets Manager. It comes with a command line interface that allows users (among other things) to easily batch out jobs, deploy new code, query existing jobs and deploy authentication files and cryptomatter to secrets manager each with a single command. It also comes pre-built with an AWS lambda that you can use to batch out jobs even faster than you can with S3 uploads. A whole architecture can be built or deleted in under a half hour. You can build architectures in parallel at the same time in AWS with CloudFormation. The CloudFormation template it uses is self-contained, so it requires no external dependencies like lambda code or layers to be stored in S3 buckets. Moreover, the part of the architecture that stores container code actually builds first so sometimes I trigger a code deployment immediately after starting a build process on an architecture and then by the time the architecture is done building in CloudFormation I can immediately begin processing jobs. I’ve set up many fully completed functioning architectures in as little as 20 minutes. Also because Shepard runs using docker-in-docker and has an option to pass the docker daemon to a user provided payload container you can actually write containerized workflows that use docker provided you configure your location container! This allows for the making of containers that can pull containers for use in analyses and containers that can build other containers.
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            kandi-support Support

              shepard has a low active ecosystem.
              It has 49 star(s) with 6 fork(s). There are 2 watchers for this library.
              OutlinedDot
              It had no major release in the last 6 months.
              There are 1 open issues and 1 have been closed. There are 2 open pull requests and 0 closed requests.
              It has a neutral sentiment in the developer community.
              The latest version of shepard is current.

            kandi-Quality Quality

              shepard has 0 bugs and 0 code smells.

            kandi-Security Security

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

            kandi-License License

              shepard is licensed under the MIT License. This license is Permissive.
              Permissive licenses have the least restrictions, and you can use them in most projects.

            kandi-Reuse Reuse

              shepard releases are not available. You will need to build from source code and install.
              shepard has no build file. You will be need to create the build yourself to build the component from source.
              Installation instructions, examples and code snippets are available.

            Top functions reviewed by kandi - BETA

            kandi has reviewed shepard and discovered the below as its top functions. This is intended to give you an instant insight into shepard implemented functionality, and help decide if they suit your requirements.
            • Execute a Lambda function
            • Get a boto3 session
            • Activates the role vars
            • Create a new role
            • Parse an S3 event
            • Create a job item
            • Submit a new job to S3
            • Return True if two sets are common
            • Reconnect secrets
            • Update an item in DynamoDB
            • Find a job in DynamoDB
            Get all kandi verified functions for this library.

            shepard Key Features

            No Key Features are available at this moment for shepard.

            shepard Examples and Code Snippets

            No Code Snippets are available at this moment for shepard.

            Community Discussions

            QUESTION

            Change value based on condition on slice of dataframe
            Asked 2022-Feb-25 at 19:26

            I have a dataframe like this:

            ...

            ANSWER

            Answered 2022-Feb-25 at 19:26

            You could include the range as another condition in your .loc selection (for the general case, I'll explicitly include the 0):

            Source https://stackoverflow.com/questions/71270739

            QUESTION

            .NET 6's System.Text.Json source generation not working
            Asked 2021-Dec-13 at 17:26

            I have tried to implement Source Generation-based JSON serilization, based on this article :

            https://docs.microsoft.com/en-us/dotnet/standard/serialization/system-text-json-source-generation?pivots=dotnet-6-0

            My code is the following :

            ...

            ANSWER

            Answered 2021-Nov-16 at 15:54

            A source generator generates source code in as an intermediate compilation step. As input, it has your code annotated with opt-in attributes, and as output it has C# files that will get compiled into your final assembly.

            You cannot yet easily inspect or debug generated source from Visual Studio. You can browse the files by opening your output directory, the .g.cs files should be in the obj directory by default.

            Now the [JsonSerializable] attribute opt-in for the System.Text.Json serializers makes the compiler output classes that aid in serialization, so you won't take a performance hit when you first serialize or deserialize to or from a certain class, but offload this performance hit to the compilation phase.

            Without code generators, System.Text.Json inspects the type for serialization metadata when it first encounters a type, caching it for the remainder of the application lifetime.

            If you apply the appropriate attributes and inspect your output directory, and you actually use the context during (de)serialization, you'll notice when it didn't work.

            Just be sure to pass the context for the appropriate type:

            Source https://stackoverflow.com/questions/69992067

            QUESTION

            ggplot2 version of shepard plot, i.e. vegan::stressplot()?
            Asked 2021-Sep-17 at 03:41

            There seems to be quite a bit of information for plotting NMDS outputs (i.e. NMDS1 vs NMDS1) using ggplot2 however I cannot find a way to plot the vegan::stressplot() (shepard's plot) using ggplot2.

            Is there a way to produce a ggplot2 version of a metaMDS output?

            Reproducible code

            ...

            ANSWER

            Answered 2021-Sep-17 at 03:41

            Here's a workaround to plot a very similar plot using ggplot2.The trick was to get the structure of the stressplot(example_NMDS) and extract the data stored in that object. I used the tidyverse package that includes ggplot and other packages such as tidyr that contains the pivot_longer function.

            Source https://stackoverflow.com/questions/69216955

            QUESTION

            Basic level linking leaflet to a database - recreating CoffeeShop example
            Asked 2021-Sep-07 at 08:42

            I am trying to work through the example from Chapter 5 of the Leaflet.js succinctly book - but cannot get any of the coffee shops to show on my map.

            Some of the commands give me errors so I've looked for workarounds, and I suspect the problem could be as simple as files not being in the correct place. Is there an idiot's guide to using databases with leaflet I could follow? Or can someone see the error I am making?

            My set up:

            • using XAMPP on a Mac - the MySQL Database and Apache Web Server are running
            • I created the leafletDB database using the terminal /Applications/xampp/xamppfiles/bin/mysql -u root -p create database leafletDB
            • I filled the database by copy paste into the terminal the contents of the CoffeeShops.sql file (I could not get the from CSV command mysql –uroot –pleaflet < "C:\CoffeeShops.sql"; to work, even changing the path to CoffeeShops.sql)
            • Checking the database using USE leafletDB; SHOW TABLES; and SELECT COUNT(*) FROM coffeeshops; all gave the expected results.
            • The leaflet database is located in /Applications/XAMPP/xamppfiles/var/mysql/
            • I copied the coffee.php file to the /Applications/XAMPP/xamppfiles/htdocs/CoffeeExample folder, which is the same file as the listing43.html file (the file that creates the map)
            • The only change I made to the listing43.html file was the path to the mugIcon (put in the same folder). I also tried simply removing the icon command - it made no difference.

            The map displays, any markers coded directly into the html file display - but nothing from the database.

            What have I got wrong?

            As requested here is a copy of all the code - sorry for how long this is

            listing43.html

            ...

            ANSWER

            Answered 2021-Sep-07 at 08:42

            Right.

            I tried running this in an apache docker-container, and a mysql db in another docker-container. I got a couple of suggestions as to the possible errors. Although I believe suggestion 2-4 are the most likely to help you.

            1. The link you use for importing JQuery seems to be dated. Instead of:

            Source https://stackoverflow.com/questions/68969541

            QUESTION

            Create an pandas column if a string from a list matches from another column
            Asked 2021-Aug-21 at 02:13

            I have a pandas dataframe which is similar to the follow but a lot bigger and complicated.

            ...

            ANSWER

            Answered 2021-Aug-21 at 01:55

            Here is one way to do it which leverages the built-in next function and its default argument:

            Source https://stackoverflow.com/questions/68869434

            QUESTION

            Can't get the variable correctly in Radiobutton in tkinter
            Asked 2021-Jul-05 at 17:47

            I am making a quiz game and for now, I have 4 questions and I put them on the screen in 2 loops. Now I want to get the variable that is in the radio button but every time I'd try to do it I get the variable from the first question again and again.

            So I basically want to get the variable that the user clicked on and compare it with the real answer and tell if he is wrong and I can't do it because it gives me the value of the first question not matter what.

            ...

            ANSWER

            Answered 2021-Jul-05 at 17:47

            I couldn't work out a solution with radio buttons (although there probably is a possible solution). However, I've managed to succeed with normal buttons.

            Basically, I've just rewritten your radio buttons to normal buttons, then defined commands (A,B,C,D) that change the answer value. After that I just threw an if statement to compare the answer to the value of the key in the for loop.

            Here's the code:

            Source https://stackoverflow.com/questions/68237740

            QUESTION

            After wait_variable() text won't change
            Asked 2021-Jul-03 at 14:59

            I am doing a quiz game and after I want to pass a page and load new question and options and the options won't change. I am using the wait_variable() method and pass a string and just the new question will appear. The options stay the same and won't change to the new ones. I don't if the problem is in the index or the wait_variable I could'nt fix that.

            ...

            ANSWER

            Answered 2021-Jul-03 at 14:59

            It is because you reset question_number to 1 in each iteration of for key in questions loop.

            Below is the modified for loop to fix the issue:

            Source https://stackoverflow.com/questions/68236005

            QUESTION

            Dictionary and getting a ValueMember - "null" is returning basically the array string
            Asked 2021-May-26 at 21:28

            Problem

            For a WinForms application, I need to display a ComboBox, with a DisplayMember and a ValueMember. This is done

            When the user selects from the ComboBox, the value stored in ValueMember (in this case a decimal) should capture to another textbox. This is done

            But I also need to have an "empty" first value, so I can know when there wasn't a selected value. Here's where the issue comes in.

            So here's a code snippet, made generic for privacy reasons.

            ...

            ANSWER

            Answered 2021-May-26 at 21:21

            If you wish to work with the values as integers then using the correct type in the first place would go along way. You could use an arbitrary number you won't use as your value for blank, such as 0, -1 or int.MinValue

            Depending on your use case, you may also need to manually set the not selected value when the control is first bound.

            Source https://stackoverflow.com/questions/67712554

            QUESTION

            Export Cosine Simularity Array out as a Matrix with Labels
            Asked 2021-May-23 at 20:54

            Short version: I have a array and need to create a matrix but with names labels on top and side and export like example csv. (sorry if may wording incorrect)

            Long version: I made a recommendation system self taught and have a website ready after a year in quarantine learning and troubleshooting here on so usually a few day of searching I figure it out, but this got me stuck for about 3 weeks now.

            The recommendation system system works in python I can put in a name and it spits of the recommended names i tweaked it and got it to acceptable results. But in the books, website and tutorial and udemy classes etc. Never learn how to take the python and make a Django site to get it to work.

            This what the output is like currently is

            ...

            ANSWER

            Answered 2021-May-23 at 20:54

            I'm not sure I understand what you're asking and I can't comment so I'm forced to write here. I assume you want to add column and index fields to the cosine_sim array. You could do something like this:

            Source https://stackoverflow.com/questions/67662857

            QUESTION

            Resetting an array after a loop
            Asked 2021-May-08 at 23:40

            I've written some JavaScript function (selectMeal) to loop 7 times randomly selecting 1 item from an array (tempMealList) then push the item to another Array (dinnersPicked). Once the items been added to the new array (dinnersPicked) it's then removed from the original array (tempMealList) to avoid it from being selected again.

            In the console, each run of this function (selectMeal) yields no issue, but when I trigger the function on a button click in HTML, each time the buttons clicked the array being used seems to be permanently altered, with the items randomly selected on the first run of the function not being considered on the second click and similarly for any successive click, any item previously shown is not considered.

            I've tried to resolve this in the function by redefining the variables at the start of the function to reset the array being considered on each click but this doesn't seem to work.

            What am I doing wrong and how can I make sure that with every click the original array is considered?

            Here is the code:

            ...

            ANSWER

            Answered 2021-May-08 at 23:40

            When you do let tempMealList = mealList; those two variables are now pointing to the same array. So when you do tempMealList.splice(index,1) you are also modifying mealList.

            Try let tempMealList = [...mealList]; instead to make a copy.

            Source https://stackoverflow.com/questions/67453046

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

            Vulnerabilities

            No vulnerabilities reported

            Install shepard

            So you want to get started with Shepard? Great. The process can be roughly boiled down to the following steps each of which will have their own section later on in this guide.
            Run the Cloudformation
            Configure the CLI
            Write Your Code
            Deploy Your Code
            Deploy Your Secrets (if you have any)
            Run Your Code
            Collect Your Results (if you have any)
            When running the configure command in the CLI you'll be prompted to fill out a few fields. I'd like to clearly establish exactly what each of those fields refers to to preempt people getting confused with things:.
            shepard_cli_account_number - The AWS account number of the account you'd like to act upon (i.e. the one that contains your flock).
            shepard_cli_role_to_assume_to_target_account - If you'd like to assume role into another account specified by "shepard_cli_account_number" this is where you'd specify the role to set as a default.
            shepard_cli_path_to_docker_folder - This is the path to a local folder that contains the resources necessary to build your payload docker container.
            shepard_cli_ecr_repo_to_push_to - This is the name of the ECR repo associated with your flock (not an ARN).
            shepard_cli_path_to_local_folder_to_batch - This is a path to a local folder that you'd like to upload as a job zip to the S3 bucket you specified in the "InputsBucket" parameter in the cloudformation. Unless you're editing the contents of this folder in-between "batch" calls you probably won't get too much use out of setting this as a default because you'd be running the same job over and over again.
            shepard_cli_s3_bucket_to_upload_to - This the name of the S3 bucket you specified in the "InputsBucket" parameter in the cloudformation that you'd like to specify as a default to upload input job zips to. Uploading an input job zip to this bucket will result in a job being run by Shepard against said zip.
            shepard_cli_dynamo_db_to_query - The name of the DynamoDB specified in the "TableName" parameter in the cloudformation.
            shepard_cli_cloudformation_to_describe - The name you gave to the cloudformation stack you ran to create your flock.
            shepard_cli_path_to_local_secrets - Path to a local folder containing secret/auth files you'd like to securely deploy to a secrets manager instance associated with a flock.
            shepard_cli_secret_store - The name of a secrets manager instance specified by the "SecretsManagerName" parameter in the cloudformation.
            shepard_cli_s3_bucket_for_results - The name of an S3 bucket specified by the "OutputsBucket" parameter in the cloudformation.
            shepard_cli_directory_to_sync_s3_bucket_to - Path to a local folder you'd like to sync your output S3 bucket to when using the shepard_cli "retrieve" command.
            shepard_cli_lambda_to_invoke - This is the name of the lambda function indicated by the logical name "ShepardSchedulerFunctionBatchingEndpoint" in the cloudformation stack you ran to build your flock. This is the name of a lambda endpoint that can be used to batch jobs for your flock.

            Support

            I'm going to be around to support stuff in the event bugs arise or someone wants me to add additional features. That said keep in mind it will be something I’ll be doing in my free time though so please keep that in mind for your expectations for turn around on adding things or fixing issues. I also want to roll out some sort of CI/CD (maybe travis-CI or something similar) to test additions to the CLI and some other mechanism for testing additions to the Cloudformation. I'd be very interested in hearing peoples ideas and welcoming anyone who feels they can bring something to the table to contribute. This probably won't be the only project I roll out and many hands make light work so if you have some good ideas for ways things could be improved for this project or for any other I'm involved with or how any of the code can be modified to work better feel free to chip in! I'm planning to be welcoming and to try to hear people out as best I can.
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