Compiling and Installing FASTA

Procedure

1. Use PuTTY to log in to the server as the root user.
2. Decompress the installation package.

   tar -xvf fasta36-36.3.8h_04-May-2020.tar.gz
   unzip sse2neon-master.zip

3. Go to the directory generated after the decompression.

   cp sse2neon-master/sse2neon.h /path/to/FASTA/fasta36-36.3.8h_04-May-2020/src/
   cd /path/to/FASTA/fasta36-36.3.8h_04-May-2020/make

4. Modify the Makefile.linux64_sse2 file.
   1. Open Makefile.linux64_sse2.

      vim Makefile.linux64_sse2

   2. Press i to enter the insert mode and modify the file as follows:

      13 SHELL=/bin/bash
      14
      15 CC = gcc -g -O2 -march=armv8.2-a
      16 LIB_DB=

   3. Press Esc, type :wq!, and press Enter to save the file and exit.
5. Go to the src directory.

   cd ../src

6. Modify the smith_waterman_sse2.c file.
   1. Open smith_waterman_sse2.c.

      vim smith_waterman_sse2.c

   2. Press i to enter the insert mode and modify the file as follows:

      23 #include "sse2neon.h"
      24 #endif

   3. Press Esc, type :wq!, and press Enter to save the file and exit.
7. Modify the global_sse2.c file.
   1. Open global_sse2.c.

      vim global_sse2.c

   2. Press i to enter the insert mode and modify the file as follows:

      21 #else
      22 #include "sse2neon.h"
      23 #endif

   3. Press Esc, type :wq!, and press Enter to save the file and exit.
8. Modify the glocal_sse2.c file.
   1. Open glocal_sse2.c.

      vim glocal_sse2.c

   2. Press i to enter the insert mode and modify the file as follows:

      21 #else
      22 #include "sse2neon.h"
      23 #endif

   3. Press Esc, type :wq!, and press Enter to save the file and exit.
9. Perform the compilation and installation.

   make -f ../make/Makefile.linux64_sse2

10. Go to the data directory.

    cd /path/to/FASTA/fasta36-36.3.8h_04-May-2020/data