Troubleshooting

Failure 1: An Error Occurs During the Bowtie Installation

Symptom

When running the make command to perform compilation during Bowtie installation, an error occurs. The error message is "narrowing conversion of '-1' from 'int' to 'char' inside { } [-Wnarrowing]".

Possible Causes

There is a narrowing conversion error.

Procedure

Run the following commands to modify the alphabet.cpp file:

Open alphabet.cpp.

vi /path/to/BOWTIE/bowtie-1.2.3/alphabet.cpp

Press i to enter the insert mode and modify line 276 of the file.
Before the modification:
```
char mask2iupac[16] = {...}
```
After the modification:
```
signed char mask2iupac[16] = {...}
```
Press Esc, type :wq!, and press Enter to save the file and exit.

Parent topic: Bowtie 1.2.3 Porting Guide (CentOS 7.6)