Clinker | Gene Fusion Visualiser
kandi X-RAY | Clinker Summary
kandi X-RAY | Clinker Summary
Fusion Super Transcript generator and Plotter. Please refer to the wiki for further information & documentation.
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Top functions reviewed by kandi - BETA
- Create annotation file
- Generate a bed line for this feature
- Annotate the fusion line
Clinker Key Features
Clinker Examples and Code Snippets
Community Discussions
Trending Discussions on Clinker
QUESTION
All this is with the new JDK 17.
I'm attempting to turn an on-heap byte array into a MemorySegment and pass that to a native function. I created simple sample code that shows this:
...ANSWER
Answered 2021-Nov-12 at 14:23I thought that one of the major advantages of Project Panama would be that native code could access on-heap memory, to avoid having to copy.
Actually despite the major advance in usability coming with project Panama, this won't be possible, for multiple reasons.
- GC moves things around in the Java heap memory, hence the address of any object (including tables) may/will change over time. However the native code is given a pointer to a memory address which of course won't be updated after a GC cycle (not even mentioning accessing that memory in the middle of a cycle).
- JNI had APIs to actually prevent GC from happening while in the middle of native code through
Get*Critical
sections. Unfortunately preventing the GC may have significant impact on application performance.
In fact Project Panama is exactly trying to avoid blocking the GC. This is why there's a clear separation of the accessed memory and why it is necessary to copy to/from native memory.
This shouldn't be much of an issue, unless this is hot code path (ie it's called very very often), or the code deals with very big data. In such case the code may want to do most of the work off-heap. If the data is in a file, maybe access that file from native code, or use a panama memory mapped file.
QUESTION
I happen to face an error when I try to call the biosphere flows of activity. And When I call the technosphere for different activities, it works fine.
However, for the biosphere:
...ANSWER
Answered 2020-May-25 at 08:36There is something wrong with your biosphere3
database - your clinker
object has an exchange with the biosphere flow (activity) ('biosphere3', 'fc1c42ce-a759-49fa-b987-f1ec5e503db1')
(which is Water, cooling, unspecified natural origin
on my machine). However, you are either missing the biosphere3
database entirely, or have deleted or otherwise modified this specific flow.
The easiest way to fix this is to reinstall it:
QUESTION
Computer configuration: my computer is maosx system, in the virtual machine installed ubuntu, the original system install ladder (VPN), Linux did not install a successful ladder (VPN).
Environment configuration: install petsc in the virtual machine, download and unpack petsc software package, install GCC, gfortran, and download MPI and BLAS/LAPACK separately before, but there was an error when installing MPI. .
...ANSWER
Answered 2020-Apr-15 at 18:33As Satish said in email, your machine likely ran out of memory. gfortran can take more the 2GB of RAM when compiling. An alternative, if you do not need Fortran, is to configure using --with-fc=0.
Community Discussions, Code Snippets contain sources that include Stack Exchange Network
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No vulnerabilities reported
Install Clinker
You can use Clinker like any standard Python library. You will need to make sure that you have a development environment consisting of a Python distribution including header files, a compiler, pip, and git installed. Make sure that your pip, setuptools, and wheel are up to date. When using pip it is generally recommended to install packages in a virtual environment to avoid changes to the system.
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