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Updated benchmark input data package and set BLASTDB
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Dan Sun committed Sep 13, 2019
1 parent b699f79 commit 836506a
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4 changes: 2 additions & 2 deletions README.md
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Expand Up @@ -22,9 +22,9 @@ $ source benchmark.env

To obtain all input data required to execute this benchmark, please [email](mailto:[email protected]) a Linux system administrator in AgResearch Ltd and ask for access to the [Globus share](https://app.globus.org/file-manager?origin_id=8d37b9ec-9ea1-11e9-a378-0a2653bc2660&origin_path=%2F) to download the input data via Globus.

The input data is packaged in a tarball. Please place the downloaded tarball in the root directory of the benchmark suite and then use the following command to extract data from the tarball:
The input data is packaged in a tarball (`benchmark_input_data.20190913.taz`). Please place the downloaded tarball in the root directory of the benchmark suite and then use the following command to extract data from the tarball:

```
$ cd $BENCHMARK_ROOT
$ tar xzf benchmark_input_data.taz
$ tar xzf benchmark_input_data.20190913.taz
```
2 changes: 2 additions & 0 deletions benchmark.env
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Expand Up @@ -48,5 +48,7 @@ BWA_BLAST_CONDA_ENV_SPEC=$BENCHMARK_SOURCE/workflow/bwa-blast/bwa-blast-conda-en
BWA_THREADS=16
SAMTOOLS_THREADS=16
BLAST_THREADS=16
BLASTDB=$INPUT_DATA_ROOT_DIR/blast-bwa/blastdata
export BWA_BLAST_CONDA_ENV
export BWA_BLASTCONDA_ENV_SPEC
export BLASTDB

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