Commit 919afe99 authored by Andreas Tille's avatar Andreas Tille
Browse files

New upstream version 0.9.21+dfsg

parent 77a1d2eb

.gitignore

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@@ -54,3 +54,4 @@ Makefile 
diamond

src/extra/benchmark.cpp

src/extra/test.cpp

src/extra/seed_stat.cpp
 
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CMakeLists.txt

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@@ -109,6 +109,9 @@ add_executable(diamond src/run/main.cpp 
  src/data/taxon_list.cpp

  src/data/taxonomy_nodes.cpp

  src/util/algo/MurmurHash3.cpp

  src/search/stage0.cpp

  src/util/memory/memory_pool.cpp

  src/data/seed_array.cpp

)



if(EXTRA)

Dockerfile

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FROM alpine:latest as build-diamond



RUN apk add --no-cache gcc g++ cmake zlib-dev ninja



WORKDIR /opt/diamond

ADD . .



WORKDIR build

RUN cmake -G Ninja -DCMAKE_BUILD_TYPE=Release -DCMAKE_BUILD_MARCH=x86-64 ..

RUN ninja && ninja install



FROM alpine:latest



LABEL maintainer="Benjamin Buchfink <buchfink@gmail.com>"

RUN apk add --no-cache libstdc++ zlib



COPY --from=build-diamond /usr/local/bin/diamond /usr/local/bin/diamond



CMD ["diamond"]
 
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README.rst

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@@ -7,7 +7,7 @@ DIAMOND is a sequence aligner for protein and translated DNA searches, designed 
- Low resource requirements and suitable for running on standard desktops or laptops.

- Various output formats, including BLAST pairwise, tabular and XML, as well as taxonomic classification.



Follow me on Twitter to get notified of updates.

Keep posted about new developments by following me on Twitter.



.. image:: https://image.ibb.co/gAmVKR/twitter1.png

   :target: https://twitter.com/bbuchfink
@@ -16,7 +16,7 @@ Follow me on Twitter to get notified of updates. 
   :target: https://gitter.im/diamond-aligner/Lobby?utm_source=badge&utm_medium=badge&utm_campaign=pr-badge&utm_content=badge

.. image:: https://anaconda.org/bioconda/diamond/badges/downloads.svg

   :target: https://anaconda.org/bioconda/diamond

.. image:: https://img.shields.io/badge/Google%20Scholar-491-blue.svg

.. image:: https://img.shields.io/badge/Google%20Scholar-523-blue.svg

   :target: https://scholar.google.de/citations?user=kjPIF1cAAAAJ



Quick start guide
@@ -25,7 +25,7 @@ Please read the `manual <https://github.com/bbuchfink/diamond/raw/master/diamond 


Installing the software on your system may be done by downloading it in binary format for immediate use::



    wget http://github.com/bbuchfink/diamond/releases/download/v0.9.19/diamond-linux64.tar.gz

    wget http://github.com/bbuchfink/diamond/releases/download/v0.9.21/diamond-linux64.tar.gz

    tar xzf diamond-linux64.tar.gz



The extracted ``diamond`` binary file should be moved to a directory contained in your executable search path (PATH environment variable).

_config.yml

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theme: jekyll-theme-cayman
 
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