Andreas Tille pushed to branch upstream at Debian Med / sra-sdk
Commits: bdf0081d by Andreas Tille at 2020-03-04T11:28:37+01:00 New upstream version 2.10.4+dfsg - - - - - 5 changed files: - CHANGES.md - README.md - build/Makefile.vers - shared/toolkit.vers - shared/toolkit.vers.h Changes: ===================================== CHANGES.md ===================================== @@ -1,6 +1,18 @@ # NCBI External Developer Release: +## SRA Toolkit 2.10.4 +**February 26, 2020** + + **kns, sra-tools:**: fixed errors when using ngc file + + +## SRA Toolkit 2.10.3 +**February 18, 2020** + + **sraxf, fasterq-dump, fastq-dump, sam-dump**: fixed a problem resulting in a segmentation fault + + ## SRA Toolkit 2.10.2 **January 15, 2020** ===================================== README.md ===================================== @@ -4,7 +4,7 @@ email: [email protected] ### Download -Visit our [download page](https://github.com/ncbi/sra-tools/wiki/Downloads) for pre-built binaries. +Visit our [download page](https://github.com/ncbi/sra-tools/wiki/01.-Downloading-SRA-Toolkit) for pre-built binaries. ### Change Log Please check the CHANGES.md file for change history. @@ -14,6 +14,14 @@ The SRA Toolkit and SDK from NCBI is a collection of tools and libraries for using data in the INSDC Sequence Read Archives. ### ANNOUNCEMENT: + +SRA Toolkit 2.10.3 +sraxf, fasterq-dump, fastq-dump, sam-dump: fixed a problem resulting in a segmentation fault + +Release 2.10.2 of `sra-tools` provides access to all the **public and controlled-access dbGaP** of SRA in the AWS and GCP environments _(Linux only for this release)_. This vast archive's original submission format and SRA-formatted data can both be accessed and computed on these clouds, eliminating the need to download from NCBI FTP as well as improving performance. + +The `prefetch` tool also retrieves **original submission files** in addition to ETL data for public and controlled-access dbGaP data. + With release 2.10.0 of `sra-tools` we have added cloud-native operation for AWS and GCP environments _(Linux only for this release)_, for use with the public SRA. `prefetch` is capable of retrieving original submission files in addition to ETL data. With release 2.9.1 of `sra-tools` we have finally made available the tool `fasterq-dump`, a replacement for the much older `fastq-dump` tool. As its name implies, it runs faster, and is better suited for large-scale conversion of SRA objects into FASTQ files that are common on sites with enough disk space for temporary files. `fasterq-dump` is multi-threaded and performs bulk joins in a way that improves performance as compared to `fastq-dump`, which performs joins on a per-record basis _(and is single-threaded)_. ===================================== build/Makefile.vers ===================================== @@ -23,4 +23,4 @@ # =========================================================================== # SRA-TOOLS and library version -VERSION = 2.10.2 +VERSION = 2.10.4 ===================================== shared/toolkit.vers ===================================== @@ -1 +1 @@ -2.10.2 +2.10.4 ===================================== shared/toolkit.vers.h ===================================== @@ -1 +1 @@ -#define TOOLKIT_VERS 0x020A0002 +#define TOOLKIT_VERS 0x020A0004 View it on GitLab: https://salsa.debian.org/med-team/sra-sdk/-/commit/bdf0081d3363e836e27474f0898a55f3ca7562f3 -- View it on GitLab: https://salsa.debian.org/med-team/sra-sdk/-/commit/bdf0081d3363e836e27474f0898a55f3ca7562f3 You're receiving this email because of your account on salsa.debian.org.
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