Compilation and Installation

Procedure

Use PuTTY to log in to the server as the root user.
Go to the /path/to/CAFE directory.
```
cd /path/to/CAFE
```
Decompress the installation package.
```
tar -xvf v4.2.1.tar.gz
```
Go to the directory generated after the decompression.
```
cd CAFE-4.2.1
```
Create a compilation file.
```
antoconf
./configure
```
Modify the cafe/cafe_tree.c file.
1. Open cafe/cafe_tree.c.
```
vi cafe/cafe_tree.c
```
2. Press i to enter the insert mode and modify the file as follows:
  - Delete if (aq1) from lines 74 and 81.
    Before the modification:
    
    After the modification:
  - Add va_list a; and va_end (a); under line 91.
  - Change NULL in line 94 to a.
    Before the modification:
    
    After the modification:
  - Add va_list b; and va_end (b); under line 318.
  - Change NULL in line 321 to b.
    Before the modification:
    
    After the modification:
  After performing 6.a, press Esc, type :set nu, and press Enter to display the line number.
3. Press Esc, type :wq!, and press Enter to save the file and exit.
Modify the libtree/phylogeny.c file.
1. Open libtree/phylogeny.c.
```
vi libtree/phylogeny.c
```
2. Press i to enter the insert mode and modify the file as follows:
  - Add va_list c; and va_end (c); under line 150.
  - Change NULL in line 153 to c.
    Before the modification:
    
    After the modification:
  - Add va_list d; and va_end (d); under line 589.
  - Change NULL in line 592 to d.
  - Add va_list e; and va_end (e); under line 609.
  - Change NULL in line 612 to e.
    Before the modification:
    
    After the modification:
  - Add va_list f; and va_end (f); under line 626.
  - Change sp1 in line 629 to f.
  - Add va_list g; and va_end (g); under line 646.
  - Change sp1 in line 649 to g.
    Before the modification:
    
    After the modification:
  - Add va_list h; and va_end (h); under line 736.
  - Change NULL in line 739 to h.
    Before the modification:
    
    After the modification:
    
    After performing 7.a, press Esc, type :set nu, and press Enter to display the line number.
3. Press Esc, type :wq!, and press Enter to save the file and exit.
Modify the cafe/viterbi.cpp file.
1. Open cafe/viterbi.cpp.
```
vi cafe/viterbi.cpp
```
2. Press i to enter the insert mode and modify the file as follows:
  - Add va_list m; and va_end (m); under line 502.
  - Change NULL in line 505 to m.
  - Add va_list j; and va_end (j); under line 508.
  - Change NULL in line 511 to j.
    Before the modification:
    
    After the modification:
  - Add va_list k; and va_end (k); under line 538.
  - Change NULL in line 541 to k.
  - Add va_list l; and va_end (l); under line 554.
  - Change NULL in line 557 to l.
    Before the modification:
    
    After the modification:
    
    After performing 8.a, press Esc, type :set nu, and press Enter to display the line number.
3. Press Esc, type :wq!, and press Enter to save the file and exit.
Perform the compilation.
```
make
```

Parent topic: CAFE 4.2.1 Porting Guide (Kylin V10)