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authorJustin Bedo <cu@cua0.org>2020-04-10 09:47:44 +1000
committerJustin Bedo <cu@cua0.org>2020-04-10 09:47:44 +1000
commitcdb7056a14915354d879c519dd396204e4af3959 (patch)
tree8eb04d09f00c1c29455c9344c43307c85be8ebad /examples/ex-tnpair/README.md
parentd4fe5ce2aaea3f951fe21094ccfa90360c12c760 (diff)
update tnpair example to run on colo828
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+This example is a tumour-normal processing workflow applied to a
+publically available whole-genome sequencing (WGS) dataset. As this
+example uses WGS data, a large amount of data will be downloaded.
+Furthermore, a large amount of space will be required to build the final
+products.
+
+# Building on local machine
+
+Run `nix build -I bionix=../..` in this directory.
+
+# Building via HPC (slurm or torque)
+
+Run `nix build -f cluster.nix` to build on slurm. Note that Nix must be
+configured such that the temporary build directories are created on
+shared storage.
+
+For Torque, run `nix build -f cluster.nix -I bionix=../.. --argstr
+tmpDir /scratch/`. Unlike the slurm handler, a shared tmpdir location
+must be specified.
+
+In both cases, you may need to adjust the resource limits specified in
+cluster.nix to suit your particular cluster hardware.