Install Trinity and solve error reporting

Shengxin software installation

Trinity install

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One 、 install trinity Report errors

Decompress code ：

tar -zxvf trinityrnaseq-v2.14.0.FULL_with_extendedTestData.tar.gz

Enter the software folder

cd trinityrnaseq-v2.14.0/

Then input make Installation , Found an error .

Using gnu compiler for Inchworm and Chrysalis
cd Inchworm && make
make[1]: Entering directory '/home/bio_kang/software/trinityrnaseq-v2.14.0/Inchworm'
mkdir -p build
cd build && cmake -DCMAKE_INSTALL_PREFIX="" ../ && make DESTDIR=../ install
/bin/sh: 1: cmake: not found
make[1]: *** [Makefile:3: all] Error 127
make[1]: Leaving directory '/home/bio_kang/software/trinityrnaseq-v2.14.0/Inchworm'
make: *** [Makefile:32: inchworm_target] Error 2

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Two 、 Resolve errors

Can't find cmake command , Need to download cmake, Click here to download , Choose the version that suits you

Use the following command to decompress （ Don't copy my ）

 tar -zxvf cmake-3.23.2-linux-x86_64.tar.gz

Get into ~/.bashrc file , Add the following code to the last line （: Fill in the absolute path of your own document after the number ）：

export PATH=$PATH:/home/bio_kang/software/cmake/bin

Input cmake --version Check whether the installation is successful

cmake version 3.23.2

And then into trinity Under the table of contents , Use make command

After compiling, use Trinity --version Check if the installation is successful , Found and reported an error ：

Command 'Trinity' not found, but can be installed with:
sudo apt install trinityrnaseq

I found someone else's reference on the Internet , It is found that you need to enter relevant files for compilation , You can refer to Small zi bamboo
Written

cd Inchworm/build/
rm CMakeCache.txt
make

Then proceed with the installation , I still can't use it ：

Trinity --version

Command 'Trinity' not found, but can be installed with:

sudo apt install trinityrnaseq

Failed to download all the time , No errors found yet , Give up bravely , Delete .tar.gz After the document , Use conda Download （ It is recommended to create a new environment , To avoid incompatibility ）

conda create -n trinity

Then input Y, You can create it successfully

Proceed ([y]/n)? y

Preparing transaction: done
Verifying transaction: done
Executing transaction: done
#
# To activate this environment, use
#
# $ conda activate trinity
#
# To deactivate an active environment, use
#
# $ conda deactivate

Activate the environment （ It's best to create a new environment ！！！）conda activate trinity
View version information ：

Trinity --version
Trinity version: Trinity-v2.8.5
** NOTE: Latest version of Trinity is Trinity-v2.14.0, and can be obtained at:
        https://github.com/trinityrnaseq/trinityrnaseq/releases

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