Function reader_from_path

Source
pub fn reader_from_path(path: &Path) -> Result<Box<dyn BufRead>>
Examples found in repository?
examples/fasta_cat.rs (line 12)
7fn main() -> io::Result<()>
8{
9    for filename in args().skip(1)
10    {
11        println!("{}", filename);
12        let mut fastx_reader = FastX::reader_from_path(Path::new(&filename))?;
13        let mut fastx_record = FastX::FastARecord::default();
14
15        while let Ok(_some @ 1..=usize::MAX) = fastx_record.read(&mut fastx_reader)
16        {
17            println!(
18                ">{} {}\n{}",
19                fastx_record.id(),
20                fastx_record.desc(),
21                String::from_utf8_lossy(&fastx_record.seq())
22            );
23        }
24    }
25    Ok(())
26}
More examples
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examples/fastx_cat.rs (line 12)
7fn main() -> io::Result<()>
8{
9    for filename in args().skip(1)
10    {
11        println!("{}", filename);
12        let mut fastx_reader = FastX::reader_from_path(Path::new(&filename))?;
13        let mut fastx_record = FastX::from_reader(&mut fastx_reader)?;
14
15        while let Ok(_some @ 1..=usize::MAX) = fastx_record.read(&mut fastx_reader)
16        {
17            println!(
18                ">{} {}\n{}",
19                fastx_record.id(),
20                fastx_record.desc(),
21                String::from_utf8_lossy(&fastx_record.seq())
22            );
23        }
24    }
25    Ok(())
26}
examples/fastq_cat.rs (line 13)
8fn main() -> io::Result<()>
9{
10    for filename in args().skip(1)
11    {
12        println!("{}", filename);
13        let mut fastx_reader = FastX::reader_from_path(Path::new(&filename))?;
14        let mut fastq_record = FastX::FastQRecord::default();
15
16        while let Ok(_some @ 1..=usize::MAX) = fastq_record.read(&mut fastx_reader)
17        {
18            println!(
19                "@{} {}\n{}\n+{}\n{}",
20                fastq_record.id(),
21                fastq_record.desc(),
22                String::from_utf8_lossy(&fastq_record.seq()),
23                fastq_record.comment(),
24                String::from_utf8_lossy(&fastq_record.qual())
25            );
26        }
27    }
28    Ok(())
29}
examples/fasta_count.rs (line 12)
7fn main() -> io::Result<()>
8{
9    for filename in args().skip(1)
10    {
11        println!("{}", filename);
12        let mut fastx_reader = FastX::reader_from_path(Path::new(&filename))?;
13        let mut fastx_record = FastX::FastARecord::default();
14
15        /*
16        // just for fun read the first line and seek back
17        use std::io::BufRead;
18        let mut line = String::new();
19        let offset = fastx_reader.read_line(&mut line)?;
20        println!("{}", line);
21        fastx_reader.seek_relative(- (offset as i64))?;
22        */
23
24        // back to serious processing
25        while let Ok(_some @ 1..=usize::MAX) = fastx_record.read(&mut fastx_reader)
26        {
27            println!("{}\t{}", fastx_record.id(), fastx_record.seq_len())
28        }
29    }
30    Ok(())
31}
examples/fastx_count.rs (line 12)
7fn main() -> io::Result<()>
8{
9    for filename in args().skip(1)
10    {
11        println!("{}", filename);
12        let mut fastx_reader = FastX::reader_from_path(Path::new(&filename))?;
13        let mut fastx_record = FastX::from_reader(&mut fastx_reader)?;
14
15        /*
16        // just for fun read the first line and seek back
17        use std::io::BufRead;
18        let mut line = String::new();
19        let offset = fastx_reader.read_line(&mut line)?;
20        println!("{}", line);
21        fastx_reader.seek_relative(- (offset as i64))?;
22        */
23
24        // back to serious processing
25        while let Ok(_some @ 1..=usize::MAX) = fastx_record.read(&mut fastx_reader)
26        {
27            println!("{}\t{}", fastx_record.id(), fastx_record.seq_len())
28        }
29    }
30    Ok(())
31}