From 4072cfdba68b1af2268853c37610960863c347f0 Mon Sep 17 00:00:00 2001 From: Carol Scott Date: Tue, 4 Jun 2024 18:48:41 +0100 Subject: [PATCH 1/3] Add PACBIO_ISOSEQ_PRIMERS to Metadata --- Changes | 4 ++++ lib/WTSI/NPG/iRODS/Metadata.pm | 4 +++- 2 files changed, 7 insertions(+), 1 deletion(-) diff --git a/Changes b/Changes index f3a5d09a..80118737 100644 --- a/Changes +++ b/Changes @@ -1,3 +1,7 @@ + + - Add PACBIO_ISOSEQ_PRIMERS to Metadata - required for archiving + analysis output from IsoSeq analysis jobs + Release 3.22.2 (2024-05-24) - Add iRODS 4.3.2, remove 4.3-nightly diff --git a/lib/WTSI/NPG/iRODS/Metadata.pm b/lib/WTSI/NPG/iRODS/Metadata.pm index 55903567..c225ea20 100644 --- a/lib/WTSI/NPG/iRODS/Metadata.pm +++ b/lib/WTSI/NPG/iRODS/Metadata.pm @@ -69,6 +69,7 @@ our @EXPORT = qw( $PACBIO_COLLECTION_NUMBER $PACBIO_DATA_LEVEL $PACBIO_INSTRUMENT_NAME + $PACBIO_ISOSEQ_PRIMERS $PACBIO_MULTIPLEX $PACBIO_PLATE_NUMBER $PACBIO_PRODUCTION @@ -186,6 +187,7 @@ our $PACBIO_CELL_INDEX = 'cell_index'; our $PACBIO_COLLECTION_NUMBER = 'collection_number'; our $PACBIO_DATA_LEVEL = 'data_level'; our $PACBIO_INSTRUMENT_NAME = 'instrument_name'; +our $PACBIO_ISOSEQ_PRIMERS = 'isoseq_primers'; our $PACBIO_MULTIPLEX = 'multiplex'; our $PACBIO_PLATE_NUMBER = 'plate_number'; our $PACBIO_PRODUCTION = 'production'; @@ -250,7 +252,7 @@ Keith James =head1 COPYRIGHT AND DISCLAIMER -Copyright (C) 2015, 2016, 2017, 2018, 2023 Genome Research Limited. +Copyright (C) 2015 - 2018, 2023, 2024 Genome Research Limited. All Rights Reserved. This program is free software: you can redistribute it and/or modify From 0fa5a0b34935f368545828eabd01cae2fdf98269 Mon Sep 17 00:00:00 2001 From: Carol Scott Date: Thu, 6 Jun 2024 17:22:32 +0100 Subject: [PATCH 2/3] Add fastq and gff as a standard ancillary file type --- Changes | 1 + lib/WTSI/NPG/iRODS/Annotator.pm | 2 +- 2 files changed, 2 insertions(+), 1 deletion(-) diff --git a/Changes b/Changes index 80118737..17d640d2 100644 --- a/Changes +++ b/Changes @@ -1,6 +1,7 @@ - Add PACBIO_ISOSEQ_PRIMERS to Metadata - required for archiving analysis output from IsoSeq analysis jobs + - Add fastq and gff as a standard ancillary file type Release 3.22.2 (2024-05-24) diff --git a/lib/WTSI/NPG/iRODS/Annotator.pm b/lib/WTSI/NPG/iRODS/Annotator.pm index 054cdf0a..1b3a29ae 100644 --- a/lib/WTSI/NPG/iRODS/Annotator.pm +++ b/lib/WTSI/NPG/iRODS/Annotator.pm @@ -72,7 +72,7 @@ sub hts_data_suffixes { =cut sub hts_ancillary_suffixes { - return (qw[bam_stats bcfstats bamcheck bed bqsr_table fasta flagstat hops json quant + return (qw[bam_stats bcfstats bamcheck bed bqsr_table fasta fastq flagstat gff hops json quant seqchksum stats tab txt xml _SamHaplotag_Clear_BC _SamHaplotag_UnClear_BC _SamHaplotag_Missing_BC_QT_tags ] ); From bd3344c1bec3b19e6634e4034568de1ffd9a629a Mon Sep 17 00:00:00 2001 From: jmtcsngr Date: Thu, 25 Jul 2024 12:20:08 +0100 Subject: [PATCH 3/3] prep release 3.23.0 --- Changes | 2 ++ 1 file changed, 2 insertions(+) diff --git a/Changes b/Changes index 17d640d2..23dea99b 100644 --- a/Changes +++ b/Changes @@ -1,4 +1,6 @@ +Release 3.23.0 (2024-07-25) + - Add PACBIO_ISOSEQ_PRIMERS to Metadata - required for archiving analysis output from IsoSeq analysis jobs - Add fastq and gff as a standard ancillary file type