API Stability of IO Module

[marehr]

General discussion: https://docs.google.com/document/d/1EuGAtT0X5tDbBNFdHeuRfU2RRVOne8CSOJt3lI0U5UY/edit#bookmark=id.c1bmao8g76c5

• [ ] ./io/alignment_file
  • [ ] ./io/alignment_file/all.hpp
  • [ ] ./io/alignment_file/detail.hpp
  • [ ] ./io/alignment_file/format_bam.hpp
  • [ ] ./io/alignment_file/format_sam_base.hpp
  • [ ] ./io/alignment_file/format_sam.hpp
  • [ ] ./io/alignment_file/header.hpp
  • [ ] ./io/alignment_file/input_format_concept.hpp
  • [ ] ./io/alignment_file/input.hpp
  • [ ] ./io/alignment_file/input_options.hpp
  • [ ] ./io/alignment_file/misc.hpp
  • [ ] ./io/alignment_file/output_format_concept.hpp
  • [ ] ./io/alignment_file/output.hpp
  • [ ] ./io/alignment_file/output_options.hpp
  • [ ] ./io/alignment_file/sam_tag_dictionary.hpp
• [ ] ./io/all.hpp
• [ ] ./io/detail
  • [ ] ./io/detail/ignore_output_iterator.hpp
  • [ ] ./io/detail/in_file_iterator.hpp
  • [ ] ./io/detail/magic_header.hpp
  • [ ] ./io/detail/misc.hpp
  • [ ] ./io/detail/misc_input.hpp
  • [ ] ./io/detail/misc_output.hpp
  • [ ] ./io/detail/out_file_iterator.hpp
  • [ ] ./io/detail/record.hpp
  • [ ] ./io/detail/safe_filesystem_entry.hpp
• [ ] ./io/exception.hpp
• [ ] ./io/record.hpp
• [ ] ./io/sequence_file
  • [ ] ./io/sequence_file/all.hpp
  • [ ] ./io/sequence_file/format_embl.hpp
  • [ ] ./io/sequence_file/format_fasta.hpp
  • [ ] ./io/sequence_file/format_fastq.hpp
  • [ ] ./io/sequence_file/format_genbank.hpp
  • [ ] ./io/sequence_file/input_format_concept.hpp
  • [ ] ./io/sequence_file/input.hpp
  • [ ] ./io/sequence_file/input_options.hpp
  • [ ] ./io/sequence_file/output_format_concept.hpp
  • [ ] ./io/sequence_file/output.hpp
  • [ ] ./io/sequence_file/output_options.hpp
• [ ] ./io/stream
  • [ ] ./io/stream/all.hpp
  • [ ] ./io/stream/concept.hpp
  • [ ] ./io/stream/iterator.hpp
• [ ] ./io/structure_file
  • [ ] ./io/structure_file/all.hpp
  • [ ] ./io/structure_file/detail.hpp
  • [ ] ./io/structure_file/format_vienna.hpp
  • [ ] ./io/structure_file/input_format_concept.hpp
  • [ ] ./io/structure_file/input.hpp
  • [ ] ./io/structure_file/input_options.hpp
  • [ ] ./io/structure_file/output_format_concept.hpp
  • [ ] ./io/structure_file/output.hpp
  • [ ] ./io/structure_file/output_options.hpp

[marehr]

TODO:

• [ ] Do we want to have a way to set record member's: (Question: https://github.com/seqan/seqan3/pull/2420/files#r585773165)
  • Before switching to explicit member functions this was possible:

    get<seqan3::field::seq>(my_record) = "ACGT"_dna4; 

  • Currently it is possible via index, since the record is still a tuple:

    get<1>(my_record) = "ACGT"_dna4;

  • If we also switch from a tuple backend we might provide

    my_record.sequence = "ACGT"_dna4;

    where .sequence is a function object that can set its value.

[marehr]

Moved to Release 3.2