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--- wiki:software:fastp [2023/04/06 14:44] – created keistc
+++ wiki:software:fastp [2024/03/22 16:20] (current) – keistc
@@ Line 1: / Line 1: @@
 ====== Fastp Install ======
-Compiling from source requires two libraries: libdeflate and libisal. Source code is [[https://github.com/OpenGene/fastp#get-fastp|here]]\\
+Compiling from source requires three libraries: libdeflate, libisal and libtool. In addition, cmake is required as well.\\
+Source code for libtool [[https://www.gnu.org/software/libtool/|here]]\\
 libisal requires nasm to compile [[https://www.nasm.us/|here]]\\
-. In the source folder run
+. For nasm cd to the source folder run
   configure --prefix=/home/.hub_local
   make
   make install
-. download and build libisal
+. Download and build libtool, cd to source folder
+  ./configure --prefix=/home/.hub_local
+  make
+  make install
+. download and build libisal
   git clone https://github.com/intel/isa-l.git
   mkdir /home/.hub_local/lib64
@@ Line 14: / Line 20: @@
   make
   sudo make install
+The above didn't work. Try the following:
+  make -f Makefile.ux
+Then copy the libisal.so in the bin folder to the /home/.hub_local/lib folder. In the /home/.hub_local/lib folder do
+  ln libisal.so libisal.so.2
 . download and build libdeflate
   git clone https://github.com/ebiggers/libdeflate.git
@@ Line 19: / Line 29: @@
   cmake -B build
   cmake --build build
+  cmake --install-prefix=/home/.hub_local build
   cmake --install build
+. download and build fast
+  git clone https://github.com/OpenGene/fastp.git
+Need to edt the Make file in the fastp folder and set the following lines:
+  PREFIX ?= /home/.hub_local
+  BINDIR ?= $(PREFIX)/bin
+  INCLUDE_DIRS ?=  /home/.hub_local/include
+  LIBRARY_DIRS ?= /home/.hub_local/lib64 /home/.hub_local/lib
+Then compile
+  # build
+  cd fastp
+  make
+  # Install
+  make install
+To run the binary you need to set the library path in the /home/.hub_local/autosourced_by_bashrcs file. Add the following line to the end of the file.
+  export LD_LIBRARY_PATH=/home/.hub_local/lib64
 That should do it.