bifrost | Highly parallel construction indexing | Genomics library

 by   pmelsted C++ Version: v1.2.0 License: BSD-2-Clause

kandi X-RAY | bifrost Summary

kandi X-RAY | bifrost Summary

bifrost is a C++ library typically used in Artificial Intelligence, Genomics applications. bifrost has no bugs, it has no vulnerabilities, it has a Permissive License and it has low support. You can download it from GitHub.

Bifrost: Highly parallel construction and indexing of colored and compacted de Bruijn graphs
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              bifrost has a low active ecosystem.
              It has 162 star(s) with 19 fork(s). There are 13 watchers for this library.
              OutlinedDot
              It had no major release in the last 12 months.
              There are 9 open issues and 46 have been closed. On average issues are closed in 83 days. There are 6 open pull requests and 0 closed requests.
              It has a neutral sentiment in the developer community.
              The latest version of bifrost is v1.2.0

            kandi-Quality Quality

              bifrost has no bugs reported.

            kandi-Security Security

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

            kandi-License License

              bifrost is licensed under the BSD-2-Clause License. This license is Permissive.
              Permissive licenses have the least restrictions, and you can use them in most projects.

            kandi-Reuse Reuse

              bifrost releases are available to install and integrate.
              Installation instructions, examples and code snippets are available.

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            bifrost Key Features

            No Key Features are available at this moment for bifrost.

            bifrost Examples and Code Snippets

            No Code Snippets are available at this moment for bifrost.

            Community Discussions

            QUESTION

            Unicode issue with Python3.7 and Scheduled Tasks
            Asked 2020-Dec-04 at 07:15

            I am trying to collect the names of the Scheduled tasks in Python using subprocess

            ...

            ANSWER

            Answered 2020-Dec-04 at 07:04

            Are you sure the schtasks output is in utf-8?

            0x81 is ü in the IBM CP437 and IBM CP850 / IBM CP858 encodings.

            In order to check this, the pragmatic way is to print out the string with repr() or with one of the decode(encoding, errors=...) options that outputs character codes (eg. decode(encoding, errors='xmlcharrefreplace')), then match it up with tables of encodings to see which one matches.

            Source https://stackoverflow.com/questions/65139087

            QUESTION

            Filter/display elements based on selected category
            Asked 2019-Feb-24 at 13:11

            I am still very new to Django and I stucked with one Issue. I have built Models as defined below:

            ...

            ANSWER

            Answered 2019-Feb-24 at 13:11

            Now I would like to display list of Issues, that relates to selected Project.

            You can simply put that logic in template of the backlog (project-backlog.html). You can access the queryset containing the related issues with backlog.issue_set.all(), so in your template you can render the related issues for example with:

            Source https://stackoverflow.com/questions/54852067

            QUESTION

            Trying to pull the Name and/or ID of the code below, but can only pull the Job-Base-Cost
            Asked 2018-Dec-29 at 13:47

            Below is the code I have now. It pulls the Job-Base-Cost just fine, however I cannot get it to pull the ID and or Name of the item. Can you help?

            Link to the sites XML pull.

            ...

            ANSWER

            Answered 2018-Dec-29 at 13:47

            This is a sample of one line of the OP's XML file
            109555912.69

            The OP wants to use the IMPORTXML function to report the ID and Name as well as the Job Cost from the XML data. Presently, the OP's formula is:
            =importxml("link","//job-base-cost")

            There are two options:
            1 - One long column
            =importxml("link","//@id | //@name | //job-base-cost")

            Note //@id and //@name in the xpath query: // indicate nodes in the document (at any level, not just the root level) and @ indicate attributes. The pipe | operator indicates AND. So the plain english query is to display the id, name and job-base-cost.

            2 - Three columns (table format)
            ={IMPORTXML("link","//@name"),IMPORTXML("link","//job-base-cost"),IMPORTXML("link","//@id")}

            This creates a series that will display the fields in each of three columns.

            Note: there is an arrayformula that uses a single importXML function described in How do I return multiple columns of data using ImportXML in Google Spreadsheets?. Readers may want to look at whether that option can be implemented.

            My thanks to @Tanaike for his comment which spurred me to look at how xpath works.

            Source https://stackoverflow.com/questions/53868515

            QUESTION

            regex + np++ + capturing string at top of page and string from bottom of page
            Asked 2018-May-09 at 22:23

            Here is my regex

            What I want to do is be able to capture the Table and the page number. Example output or what I want is below. The Table part I want is hopefully obvious. The page number is 10 in 10 4 Text Core statistics aggregated by the Statistics(the first number) and 12 in 4 Text Core statistics aggregated by the Statistics 12(the lastnumber).

            In np++ I can get all the Tables with Table \d+ But I also want the page number from the bottome of the same page.

            What I have:

            ...

            ANSWER

            Answered 2018-May-08 at 01:53

            I can offer at least a partial solution. Do a replacement on the following pattern:

            Source https://stackoverflow.com/questions/50224610

            QUESTION

            Ignore files within the 'Delete Files Task'
            Asked 2017-Jul-26 at 04:09

            As part of my install scripts for Visual Studio Online (VSO / VSTS) I delete the files in my directory shortly after uninstalling the services.

            We have configuration files and logs that I'd like to preserve but everytime I try to tell the 'Delete Files Task' to ignore those files it deletes them anyway.

            What I want is for ALL files in the Bifrost directory to be deleted except for

            • The Logs folder
            • App.Connections.Config
            • App.Queues.Config

            Can someone help please?

            ...

            ANSWER

            Answered 2017-Jul-26 at 04:09
            • If the files you want to delete are located in the agent folder or the subfolder of the agent machine, you can use Delete Files Task. Because the Source Folder of Delete Files Task can only be specified for the agent machine.
            • If the files you want to delete are located on another remote machine, you should use Powershell task or RemoteDelete task to delete the files.

              For powershell task, there are many powershell script on the web to delete files from remote machine.

              For RemoteDelete task, you can set as below:

              Input your remote machine’s IP, username and password.

              Path: the directory for Bifrost folder, such as D:\test\Bitfrost

              Include Items: folders and files you want to delete and separate with comma (,). Such as delete folder temp and file *.txt, you can specify with temp,*.txt

              Exculde Items: folders and files you want to keep. For you situation, you should specify as Logs,App.Connections.Config,App.Queues.Config

              Note: the Include Items option can't leave empty or use **, otherwise it will delete all the files and folders in Bifrost.

            Source https://stackoverflow.com/questions/45303993

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

            Vulnerabilities

            No vulnerabilities reported

            Install bifrost

            Compared to the source install, the Conda and Brew packages do not support k>31 nor native compilation (including AVX2 instructions). Use the source installation for benchmarking.
            From Brew: brew install brewsci/bio/bifrost
            From Bioconda: conda -c bioconda bifrost
            From source git clone https://github.com/pmelsted/bifrost.git cd bifrost && mkdir build && cd build cmake .. make make install make install might require sudo (sudo make install) to proceed. To install Bifrost in the non-default path /some/path/, add the option -DCMAKE_INSTALL_PREFIX=/some/path/ to the cmake command. By default, the installation creates: a binary (Bifrost) a dynamic library (libbifrost.so for Unix or libbifrost.dylib for MacOS) a static library (libbifrost.a) Advanced options Bifrost compiles by default with -march=native: the compiler targets architecture instructions specific to the machine Bifrost is compiled on. Hence, the binary and library produced might not work on a different machine. Native compilation can be disabled by adding the option -DCOMPILATION_ARCH=OFF to the cmake command (disables all AVX2 optimizations too). Alternatively, you can use this option to specify the architecture you want to target: x86-64, knl, etc. Default is -DCOMPILATION_ARCH=native. Bifrost uses AVX2 instructions during graph construction which can be disabled by adding the option -DENABLE_AVX2=OFF to the cmake command. If you encounter any problem during the installation, see the Troubleshooting section.

            Support

            Documentation for the Bifrost library is available in the /doc/doxygen folder (HTML version, open html/index.html).
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            CLONE
          • HTTPS

            https://github.com/pmelsted/bifrost.git

          • CLI

            gh repo clone pmelsted/bifrost

          • sshUrl

            git@github.com:pmelsted/bifrost.git

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