It seems like Lighter just checks if the first character of the file is '@' to consider it valid.
For example, this input file (test.fq) was considered correct:
@IRIS:7:1:17:394#0/1
GTCAGGACAAGAAAGACAANTCCAATTNACATTATG
IRIS:7:1:17:394#0/1
aaabaa]baaaaa_aab]D^^baYDW]abaa^
IRIS:7:1:17:800#0/1
GGAAACACTACTTAGGCTTATAAGATCNGGTTGCGG
IRIS:7:1:17:800#0/1
ababbaaabaaaaa]ba]aaaaYD_aXT IRIS:7:1:17:1757#0/1 TTTTCTCGACGATTTCCACTCCTGGTCNACGAATCC IRIS:7:1:17:1757#0/1 aaaaaaaaa`aaaa_^a```]][Z[DY^XYV^_Y
ksdsada
dada
e
e
5
output:
./lighter -r test.fq -k 17 5000000 0.1 -t 10
[2014-12-08 11:35:35] =============Start====================
[2014-12-08 11:35:35] Bad quality threshold is "T"
[2014-12-08 11:35:36] Finish sampling kmers
[2014-12-08 11:35:36] Bloom filter A's error rate: 0.000000
[2014-12-08 11:35:36] Finish storing trusted kmers
[2014-12-08 11:35:36] Finish error correction
Processed 5 reads:
0 are error-free
Corrected 0 bases(0.000000 corrections for reads with errors)
Trimmed 0 reads with average trimmed bases 0.000000
Discard 0 reads
It seems like Lighter just checks if the first character of the file is '@' to consider it valid. For example, this input file (test.fq) was considered correct: @IRIS:7:1:17:394#0/1 GTCAGGACAAGAAAGACAANTCCAATTNACATTATG IRIS:7:1:17:394#0/1 aaabaa
]baaaaa_aab]D^^baYDW]abaa^ IRIS:7:1:17:800#0/1 GGAAACACTACTTAGGCTTATAAGATCNGGTTGCGG IRIS:7:1:17:800#0/1 ababbaaabaaaaa]ba]aaaaYD_aXT IRIS:7:1:17:1757#0/1 TTTTCTCGACGATTTCCACTCCTGGTCNACGAATCC IRIS:7:1:17:1757#0/1 aaaaaaaaa`aaaa_^a```]][Z[DY^XYV^_Y ksdsada dada e e 5output: ./lighter -r test.fq -k 17 5000000 0.1 -t 10 [2014-12-08 11:35:35] =============Start==================== [2014-12-08 11:35:35] Bad quality threshold is "T" [2014-12-08 11:35:36] Finish sampling kmers [2014-12-08 11:35:36] Bloom filter A's error rate: 0.000000 [2014-12-08 11:35:36] Finish storing trusted kmers [2014-12-08 11:35:36] Finish error correction Processed 5 reads: 0 are error-free Corrected 0 bases(0.000000 corrections for reads with errors) Trimmed 0 reads with average trimmed bases 0.000000 Discard 0 reads