Difference between revisions of "Raven"
Jump to navigation
Jump to search
(Created page with "Category:SoftwareCategory:assembly {|<!--CONFIGURATION: REQUIRED--> |{{#vardefine:app|raven}} |{{#vardefine:url|https://github.com/lbcb-sci/raven}} <!--CONFIGURATION:...") |
|||
| Line 22: | Line 22: | ||
<!--Modules--> | <!--Modules--> | ||
==Environment Modules== | ==Environment Modules== | ||
| − | + | Users should create their own environments for this application. See below for additional information. | |
| − | |||
| − | |||
<!--Configuration--> | <!--Configuration--> | ||
{{#if: {{#var: conf}}|==Configuration== | {{#if: {{#var: conf}}|==Configuration== | ||
| Line 31: | Line 29: | ||
<!--Run--> | <!--Run--> | ||
{{#if: {{#var: exe}}|==Additional Information== | {{#if: {{#var: exe}}|==Additional Information== | ||
| − | |||
| − | |||
| − | |||
|}} | |}} | ||
<!--Job Scripts--> | <!--Job Scripts--> | ||
| Line 62: | Line 57: | ||
|}} | |}} | ||
<!--Installation--> | <!--Installation--> | ||
| − | + | ==Installation== | |
| − | + | Building the application (with CUDA support): | |
| + | |||
| + | <code>module load conda | ||
| + | |||
| + | mamba create -yp /blue/your/install/path/raven/1.8.3 python zlib gcc cmake doxygen boost thrust=1.9.8 | ||
| + | |||
| + | mamba activate /blue/your/install/path/raven/1.8.3 | ||
| + | |||
| + | module load cuda | ||
| + | |||
| + | git clone https://github.com/lbcb-sci/raven && cd raven | ||
| + | |||
| + | cmake -S ./ -B./build -DRAVEN_BUILD_EXE=1 -DCMAKE_BUILD_TYPE=Release -Dracon_enable_cuda=Yes --install-prefix=/blue/your/install/path/raven/1.8.3 | ||
| + | |||
| + | cmake --build build | ||
| + | |||
| + | cmake --install ./build</code> | ||
| + | |||
<!--Turn the Table of Contents and Edit paragraph links ON/OFF--> | <!--Turn the Table of Contents and Edit paragraph links ON/OFF--> | ||
__NOTOC____NOEDITSECTION__ | __NOTOC____NOEDITSECTION__ | ||
Revision as of 21:12, 20 November 2023
Description
Raven is a de novo genome assembler for long uncorrected reads.
Environment Modules
Users should create their own environments for this application. See below for additional information.
Installation
Building the application (with CUDA support):
module load conda
mamba create -yp /blue/your/install/path/raven/1.8.3 python zlib gcc cmake doxygen boost thrust=1.9.8
mamba activate /blue/your/install/path/raven/1.8.3
module load cuda
git clone https://github.com/lbcb-sci/raven && cd raven
cmake -S ./ -B./build -DRAVEN_BUILD_EXE=1 -DCMAKE_BUILD_TYPE=Release -Dracon_enable_cuda=Yes --install-prefix=/blue/your/install/path/raven/1.8.3
cmake --build build
cmake --install ./build