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Update installation.rst #495

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Update installation.rst #495

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24 changes: 12 additions & 12 deletions docs/installation.rst
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Original file line number Diff line number Diff line change
Expand Up @@ -44,18 +44,18 @@ The following shell script should work-
# download the distribution (won't take long)
wget https://data.monarchinitiative.org/exomiser/latest/exomiser-cli-\ |version|\-distribution.zip
# download the data (this is ~80GB and will take a while). If you only require a single assembly, only download the relevant file.
wget https://data.monarchinitiative.org/exomiser/latest/2202_hg19.zip
wget https://data.monarchinitiative.org/exomiser/latest/2202_hg38.zip
wget https://data.monarchinitiative.org/exomiser/latest/2202_phenotype.zip
wget https://data.monarchinitiative.org/exomiser/latest/2302_hg19.zip
wget https://data.monarchinitiative.org/exomiser/latest/2302_hg38.zip
wget https://data.monarchinitiative.org/exomiser/latest/2302_phenotype.zip

# unzip the distribution and data files - this will create a directory called 'exomiser-cli-|version|' in the current working directory
unzip exomiser-cli-|version|-distribution.zip
unzip 2202_*.zip -d exomiser-cli-|version|/data
unzip 2302_*.zip -d exomiser-cli-|version|/data

# Check the application.properties are pointing to the correct versions
# exomiser.hg19.data-version=2202
# exomiser.hg38.data-version=2202
# exomiser.phenotype.data-version=2202
# exomiser.hg19.data-version=2302
# exomiser.hg38.data-version=2302
# exomiser.phenotype.data-version=2302

# run a test exome analysis
cd exomiser-cli-|version|
Expand Down Expand Up @@ -155,7 +155,7 @@ with

exomiser.data-directory=/full/path/to/alternative/data/directory

For example, assuming you unzipped the contents of the `2202_hg38.zip` data file into `/data/exomiser-data`:
For example, assuming you unzipped the contents of the `2302_hg38.zip` data file into `/data/exomiser-data`:

.. parsed-literal::

Expand All @@ -167,9 +167,9 @@ where the contents of `exomiser-data` looks something like this:

$ tree -L 1 /data/exomiser-data/
/data/exomiser-data/
├── 2202_hg19
├── 2202_hg38
├── 2202_phenotype
├── 2302_hg19
├── 2302_hg38
├── 2302_phenotype
├── cadd
└── remm

Expand Down Expand Up @@ -251,4 +251,4 @@ Check that your unzip version was compiled with LARGE_FILE_SUPPORT and ZIP64_SUP

unzip -version

This shouldn't be an issue with more recent linux distributions.
This shouldn't be an issue with more recent linux distributions.