Eric Coissac a186bd1c92 fix: validate non-empty sequence IDs in FASTA and FASTQ writers ...

Adds a pre-processing guard that checks for empty sequence identifiers before formatting. This prevents malformed FASTA output and stops downstream processing of invalid FASTQ data by terminating early. The check is placed before existing sequence-length validations to enforce non-empty IDs during batch processing.

2026-05-05 18:07:58 +02:00

..

kseq

some more cleaning

2024-01-16 21:11:38 +01:00

batch_of_files_reader.go

Update of obipcr and homogenization of logging

2024-05-16 15:18:30 +02:00

batch_reader_type.go

Change path of the obitools pkg

2023-11-29 12:14:37 +01:00

csv_read.go

Refactoring of the default values

2025-01-24 18:09:59 +01:00

csv_writer.go

Refactoring of the default values

2025-01-24 18:09:59 +01:00

csviterator.go

Make sequence files recognized as a taxonomy

2025-03-14 14:22:22 +01:00

csvtaxdump_read.go

Changes to be committed:

2025-06-04 09:48:10 +02:00

dispatcher.go

reduce the memory impact of obiuniq.

2024-11-27 13:30:16 +01:00

ecopcr_read.go

Changes to be committed:

2025-06-04 09:48:10 +02:00

embl_read.go

Add EMBL rope parsing support and improve sequence extraction

2026-03-10 17:02:14 +01:00

empty_file.go

Change path of the obitools pkg

2023-11-29 12:14:37 +01:00

fastaseq_read.go

Refactor rope scanner and add FASTQ rope parser

2026-03-10 16:47:03 +01:00

fastqseq_read.go

Refactor rope scanner and add FASTQ rope parser

2026-03-10 16:47:03 +01:00

fastqseq_write_generic.go

patch for impot bug

2023-12-01 16:31:35 +01:00

fastseq_header.go

Change the API of workers

2024-03-02 16:03:46 -04:00

fastseq_interface.go

Change path of the obitools pkg

2023-11-29 12:14:37 +01:00

fastseq_json_header.go

Replace SplitInTwo with LeftSplitInTwo/RightSplitInTwo for precise splitting

2026-03-12 18:41:28 +01:00

fastseq_obi_header.go

Manage a lock on StatsOnValues

2025-06-17 16:46:11 +02:00

fastseq_read.c

Patch reading of annotation from stdin

2022-09-29 14:48:05 +02:00

fastseq_read.go

Refactoring of the default values

2025-01-24 18:09:59 +01:00

fastseq_read.h

First commit

2022-01-13 23:27:39 +01:00

fastseq_write_fasta.go

fix: validate non-empty sequence IDs in FASTA and FASTQ writers

2026-05-05 18:07:58 +02:00

fastseq_write_fastq.go

fix: validate non-empty sequence IDs in FASTA and FASTQ writers

2026-05-05 18:07:58 +02:00

fastseq_write_with_index.go

many changes ;-)

2023-12-05 15:28:29 +01:00

file_chunk_read.go

Optimisation du parsing des grandes séquences

2026-03-10 14:20:21 +01:00

file_chunk_write.go

Refactoring of the default values

2025-01-24 18:09:59 +01:00

genbank_read.go

Refactor rope scanner and add FASTQ rope parser

2026-03-10 16:47:03 +01:00

json_writer.go

Patch a small bug on json write

2024-11-29 18:39:18 +01:00

ncbitaxdump_read.go

Changes to be committed:

2025-06-04 09:48:10 +02:00

ncbitaxdump_readtar.go

Changes to be committed:

2025-06-04 09:48:10 +02:00

newick_write.go

Changes to be committed:

2025-06-04 09:48:10 +02:00

ngsfilter_read.go

[ngsfilter] Trim whitespace from primer and sample fields

2026-04-30 08:14:39 +02:00

options.go

Debug on taxonomy extraction and CSV conversion

2025-07-07 15:29:40 +02:00

rope_scanner.go

replace fixed-size carry buffer with dynamic slice

2026-03-11 20:44:45 +01:00

taxonomy_read.go

Changes to be committed:

2025-06-04 09:48:10 +02:00

universal_read.go

debug url reading

2025-11-18 15:30:20 +01:00

universal_write.go

Patch a bug on writing to stdout, and add clearer error on openning data files

2024-08-13 09:45:28 +02:00