[med-svn] [Git][med-team/fastaq][master] Fix edam syntax input+output is singular
Andreas Tille
gitlab at salsa.debian.org
Thu Apr 11 20:28:41 BST 2019
Andreas Tille pushed to branch master at Debian Med / fastaq
Commits:
e7a60294 by Andreas Tille at 2019-04-11T19:28:10Z
Fix edam syntax input+output is singular
- - - - -
1 changed file:
- debian/upstream/edam
Changes:
=====================================
debian/upstream/edam
=====================================
@@ -6,75 +6,75 @@ scopes:
- name: add_indels
function:
- Sequence mutation and randomisation
- inputs:
+ input:
- data: Sequence
formats: [FASTA, FASTQ]
- outputs:
+ output:
- data: Sequence
formats: [FASTA, FASTQ]
- name: caf_to_fastq
function:
- Formatting
- inputs:
+ input:
- data: Sequence assembly report
formats: [CAF]
- outputs:
+ output:
- data: Sequence
formats: [FASTQ]
- name: capillary_to_pairs
function:
- Sequence file editing
- inputs:
+ input:
- data: Sequence
formats: [FASTA]
- outputs:
+ output:
- data: Sequence
formats: [FASTA]
- name: chunker
function:
- Splitting
- inputs:
+ input:
- data: Sequence
formats: [FASTA, FASTQ]
- outputs:
+ output:
- data: Sequence
formats: [FASTA, FASTQ]
- name: count_sequences
function:
- Data handling
- inputs:
+ input:
- data: Sequence
formats: [FASTA, FASTQ]
- outputs:
+ output:
- data: Sequence
formats: [FASTA, FASTQ]
- name: deinterleave
function:
- Splitting
- inputs:
+ input:
- data: Sequence
formats: [FASTA]
- outputs:
+ output:
- data: Sequence
formats: [FASTA]
- name: enumerate_names
function:
- Sequence file editing
- inputs:
+ input:
- data: Sequence
formats: [FASTA, FASTQ]
- outputs:
+ output:
- data: Sequence
formats: [FASTA, FASTQ]
- name: expand_nucleotides
function:
- Sequence generation (nucleic acid)
- inputs:
+ input:
- data: Sequence
formats:
- FASTA
- FASTQ
- outputs:
+ output:
- data: Sequence
formats:
- FASTA
@@ -82,21 +82,21 @@ scopes:
- name: fasta_to_fastq
function:
- Formatting
- inputs:
+ input:
- data: Sequence
formats:
- FASTA
- qual
- outputs:
+ output:
- data: Sequence
formats: [FASTQ]
- name: filter
function:
- Sequence file editing
- inputs:
+ input:
- data: Sequence
formats: [FASTA, FASTQ]
- outputs:
+ output:
- data: Sequence
formats:
- FASTA
@@ -104,45 +104,45 @@ scopes:
- name: get_ids
function:
- ID retrieval
- inputs:
+ input:
- data: Sequence
formats: [FASTA, FASTQ]
- outputs:
+ output:
- data: Sequence
formats: [FASTA, FASTQ]
- name: get_seq_flanking_gaps
function:
- Sequence database search
- inputs:
+ input:
- data: Sequence
formats: [FASTA]
- outputs:
+ output:
- data: Sequence
formats: [FASTA]
- name: interleave
function:
- Aggregation
- inputs:
+ input:
- data: Sequence
formats: [FASTA, FASTQ]
- outputs:
+ output:
- data: Sequence
formats: [FASTA, FASTQ]
- name: make_random_contigs
function:
- Random sequence generation
- outputs:
+ output:
- data: Sequence
formats: [FASTQ]
- name: merge
function:
- Aggregation
- inputs:
+ input:
- data: Sequence
formats:
- FASTA
- FASTQ
- outputs:
+ output:
- data: Sequence
formats:
- FASTA
@@ -150,12 +150,12 @@ scopes:
- name: replace_bases
function:
- Sequence mutation and randomization
- inputs:
+ input:
- data: Sequence
formats:
- FASTA
- FASTQ
- outputs:
+ output:
- data: Sequence
formats:
- FASTA
@@ -163,37 +163,37 @@ scopes:
- name: reverse_complement
function:
- Nucleic acid sequence reverse and complement
- inputs:
+ input:
- data: Sequence
formats: [FASTA, FASTQ]
- outputs:
+ output:
- data: Sequence
formats: [FASTA, FASTQ]
- name: scaffolds_to_contigs
function:
- Sequence generation (nucleic acid)
- inputs:
+ input:
- data: Sequence
formats: [FASTA, FASTQ]
- outputs:
+ output:
- data: Sequence
formats: [FASTA, FASTQ]
- name: search_for_seq
function:
- Sequence database search
- inputs:
+ input:
- data: Sequence
formats: [FASTA, FASTQ]
- outputs:
+ output:
- data: Sequence
formats: [FASTA, FASTQ]
- name: sequence_trim
function:
- Sequence trimming
- inputs:
+ input:
- data: Sequence
formats: [FASTA, FASTQ]
- outputs:
+ output:
- data: Sequence
formats:
- FASTA
@@ -201,12 +201,12 @@ scopes:
- name: sort_by_size
function:
- Sequence file editing
- inputs:
+ input:
- data: Sequence
formats:
- FASTA
- FASTQ
- outputs:
+ output:
- data: Sequence
formats:
- FASTA
@@ -214,12 +214,12 @@ scopes:
- name: split_by_base_count
function:
- Splitting
- inputs:
+ input:
- data: Sequence
formats:
- FASTA
- FASTQ
- outputs:
+ output:
- data: Sequence
formats:
- FASTA
@@ -227,12 +227,12 @@ scopes:
- name: strip_illumina_suffix
function:
- Sequence file editing
- inputs:
+ input:
- data: Sequence
formats:
- FASTA
- FASTQ
- outputs:
+ output:
- data: Sequence
formats:
- FASTA
@@ -240,16 +240,16 @@ scopes:
- name: to_fake_qual
function:
- Generation
- inputs:
+ input:
- data: Sequence
formats: [FASTA, FASTQ]
- outputs:
+ output:
- data: Sequence
formats: [qual]
- name: to_fasta
function:
- Formatting
- inputs:
+ input:
- data: Sequence
formats:
- FASTA
@@ -258,96 +258,96 @@ scopes:
- EMBL format
- GenBank format
- PHYLIP format
- outputs:
+ output:
- data: Sequence
formats: [FASTA]
- name: to_mira_xml
function:
- Generation
- inputs:
+ input:
- data: Sequence
formats:
- FASTA
- FASTQ
- outputs:
+ output:
- data: Sequence
formats:
- XML
- name: to_orfs_gff
function:
- Coding region prediction
- inputs:
+ input:
- data: Sequence
formats:
- FASTA
- FASTQ
- outputs:
+ output:
- data: Sequence features
formats:
- GFF3
- name: to_perfect_reads
function:
- Generation
- inputs:
+ input:
- data: Sequence
formats:
- FASTA
- FASTQ
- outputs:
+ output:
- data: Sequence
formats:
- FASTQ
- name: to_random_subset
function:
- Random sequence generation
- inputs:
+ input:
- data: Sequence
formats: [FASTA, FASTQ]
- outputs:
+ output:
- data: Sequence
formats: [FASTQ]
- name: to_tiling_bam
function:
- Generation
- inputs:
+ input:
- data: Sequence
formats: [FASTA]
- outputs:
+ output:
- data: Alignment
formats: [BAM]
- name: translate
function:
- DNA translation
- inputs:
+ input:
- data: Sequence
formats: [FASTA, FASTQ]
- outputs:
+ output:
- data: Sequence
formats: [FASTA]
- name: trim_Ns_at_end
function:
- Sequence trimming
- inputs:
+ input:
- data: Sequence
formats: [FASTA, FASTQ]
- outputs:
+ output:
- data: Sequence
formats: [FASTA, FASTQ]
- name: trim_contigs
function:
- Sequence trimming
- inputs:
+ input:
- data: Sequence
formats: [FASTA, FASTQ]
- outputs:
+ output:
- data: Sequence
formats: [FASTA, FASTQ]
- name: trim_ends
function:
- Sequence trimming
- inputs:
+ input:
- data: Sequence
formats: [FASTA, FASTQ]
- outputs:
+ output:
- data: Sequence
formats: [FASTA, FASTQ]
View it on GitLab: https://salsa.debian.org/med-team/fastaq/commit/e7a60294eaa401ce8c1a7fb5d8aa9a79a63fd7a9
--
View it on GitLab: https://salsa.debian.org/med-team/fastaq/commit/e7a60294eaa401ce8c1a7fb5d8aa9a79a63fd7a9
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