MATAM must not support FASTA file as input

[loic-couderc]

Describe the bug
If we provides a FASTA file instead of a FASTQ file to MATAM, the contigs assembly step does not work as expected.
The extract_reads_by_component function is expecting a FASTQ file and reads the file a such.

To Reproduce
Run MATAM in default mode with a FASTA (converting the FASTQ file of the example to a FASTA will be sufficient).

We have to remove the possibility to use a FASTA file as input.