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1. #Sqlite debug with db browser for sqlite install
2. #Sqlite debug with db browser for sqlite update
3. #Sqlite debug with db browser for sqlite windows

BOWTIE_PATH, GENOME_PATH and VCF_QUERY_CMD indicates the path to a bowtie executable, the genome For this list, AUTHOR and AUTHOREMAIL indicates the author of the package and their email.

If the list is provided, a package will be generated containing the database along with other relevant metadata supplemented by the values supplied in If NULL is supplied, a database willīe generated at the path specified in db.name. Maximum number of mismatches to allow in the realignments.Ī character vector containing the chromosomes to consider or NULL in which case all available chromosomes from the specified genome will be used.Įither NULL or a named list containing the following elements: "AUTHOR", "AUTHOREMAIL", "BOWTIE_PATH", "GENOME_PATH", "VCF_QUERY_CMD", "VCF_TYPE". These will be the probes that go through the SNP masking process and will beĬandidates for removal due to being impacted by variants. 'SNV' or 'INDEL').Ī character vector containing the path to the tab delimited probe sequence file distributed by Affymetrix.Ī character vector containing the name of the output database name.Ĭategories of probes to keep from the e.g. If missing or NULL, noĪ list containing named elements with any additional values to be passed to filter.func if applicable.Ī character vector containing the path to one or more VCF files.Ī character vector containing the desired label for each VCF file (e.g. Number of iterations to be limited to for testing purposesĪ function to be used to filter a list as returned by scanVcf For example see oligoMask::. Label associate with the VCF file, usually 'SNV' or 'INDEL' GRanges object containing the probe alignments information The number of aligned probes to be processed at a given timeĬharacter vector containing the genotype columns to be used Logical indicating whether additional messages should be displayed to the user The subset of tables the procedure should be limited to or NULL. List or other type of data to be inserted into the database using the function in the dta.func element of the TableSchemaList. To lbartoletti 😄).Populate.db. ( db.con, db.schema, ins.vals, use.tables = NULL, bug = FALSE ) ( db.schema, window.size, vcf.name, db.con, ange, vcf.type = "SNV", use.tables = NULL, limit = NULL, bug = FALSE, vcf.param = NULL, filter.func = NULL, filter.params = list ()) .db ( vcf.files, vcf.labels, , strain.names, bs.genome, db.schema, db.name = "test.db", keep.category = "main", window.size = 1000, max.mismatch = 1, limit.chr = NULL, bug = FALSE, = NULL ) On others, compile DB4S using the instructionsĭB Browser for SQLite works well on FreeBSD, and there is a port for it (thanks To add this ppa, type these commands into the terminal: sudo add-apt-repository -y ppa:linuxgndu/sqlitebrowser-testing Launchpad does not support Utopic any more, which has reached its End of.Precise does not have a new enough Qt package in its repository by default,.Ubuntu Precise (12.04) and Utopic (14.10) are not supported: Launchpad decides to discontinue building for any series).

#Sqlite debug with db browser for sqlite update

Then update the cache using: sudo apt-get update To add this ppa just type in these commands in terminal: sudo add-apt-repository -y ppa:linuxgndu/sqlitebrowser

#Sqlite debug with db browser for sqlite install

Install the package using: sudo apt-get install sqlitebrowserįor Ubuntu and derivaties, a PPA with the latest release here: Update the cache using: sudo apt-get update Therefore packages will typically contain some older version, compared to the latest release. Note that Debian focuses more on stability rather than newest features. OpenSUSE sudo zypper install sqlitebrowser Install for Fedora (i386 and x86_64) by issuing the following command: sudo dnf install sqlitebrowser Install with the following command: sudo pacman -S sqlitebrowser Other distribution specific instructions: Arch LinuxĪrch Linux provides an up to date version

Snap Nightly builds snap install sqlitebrowser -devmode Snap Release build snap install sqlitebrowser Remember to change it’s permission bits to be executable before you run it. Our latest release is available as an AppImage, Snap packages, and distribution specific packages: AppImage

#Sqlite debug with db browser for sqlite windows

If you prefer using Homebrew for macOS, our latest release can be installed via Homebrew Cask: brew install -cask db-browser-for-sqliteĭownload nightly builds for Windows and macOS here: Nightly builds often fix bugs reported after the last release. gives an error), try a nightly build ( below). Note - If for any reason the standard Windows release does not work