feat: add proof of concept solution for #814

constants/BAM.yaml

@@ -0,0 +1,16 @@
+constants:
+- name: magic
+  value: 'BAM\\1'
+
+outputs:
+  python:
+    path: autogenerated/python/BAM.py
+  javascript:
+    path: autogenerated/javascript/BAM.js
+  c:
+    path: autogenerated/c/BAM.h
+  java:
+    path: autogenerated/java/BAM.java
+  rust:
+    path: autogenerated/rust/BAM.rs
+

constants/SAM.yaml

@@ -0,0 +1,157 @@
+constants:
+- name: SAM_HEADER_TAG
+  value: "HD"
+  description: The tag for the SAM header
+- name: SAM_HEADER_VERSION_TAG
+  value: VN
+  description: The version tag for the SAM header
+- name: SAM_HEADER_SORTORDER_TAG
+  value: SO
+  description: The sort order tag for the SAM header
+- name: SAM_HEADER_GROUPORDER_TAG
+  value: GO
+  description: The group order tag for the SAM header
+- name: SAM_HEADER_SUBSORT_TAG
+  value: SS
+  description: The subsort tag for the SAM header
+- name: SAM_HEADER_REFERENCE_SEQUENCE
+  value: SQ
+  description: The reference sequence tag for the SAM header sequence
+- name: SAM_HEADER_SEQUENCE_LENGTH
+  value: LN
+  description: The sequence length tag for the SAM header sequence
+- name: SAM_HEADER_SEQUENCE_ALTERNATIVE
+  value: AH
+  description: Is alternative sequence tag for the SAM header sequence
+- name: SAM_HEADER_SEQUENCE_ALTERNATIVE_NAME
+  value: AN
+  description: The alternative sequence names tag for the SAM header sequence
+- name: SAM_HEADER_SEQUENCE_ASSEMBLY_ID
+  value: AS
+  description: The assembly ID tag for the SAM header sequence
+- name: SAM_HEADER_SEQUENCE_DESCRIPTION
+  value: DS
+  description: The sequence description tag for the SAM header sequence
+- name: SAM_HEADER_SEQUENCE_MD5
+  value: M5
+  description: The MD5 tag for the SAM header sequence
+- name: SAM_HEADER_SEQUENCE_SPECIES
+  value: SP
+  description: The species tag for the SAM header sequence
+- name: SAM_HEADER_SEQUENCE_TOPOLOGY
+  value: TP
+  description: The topology tag for the SAM header sequence
+- name: SAM_HEADER_SEQUENCE_URI
+  value: UR
+  description: The URI tag for the SAM header sequence
+- name: SAM_HEADER_READGROUP_TAG
+  value: RG
+  description: The read group tag for the SAM header readgroup
+- name: SAM_HEADER_READGROUP_ID
+  value: ID
+  description: The read group ID tag for the SAM header readgroup
+- name: SAM_HEADER_READGROUP_BARCODE
+  value: BC
+  description: The read group barcode tag for the SAM header readgroup
+- name: SAM_HEADER_READGROUP_SEQ_CENTER
+  value: SC
+  description: The sequencing center tag for the SAM header readgroup
+- name: SAM_HEADER_READGROUP_DESCRIPTION
+  value: DS
+  description: The description tag for the SAM header readgroup
+- name: SAM_HEADER_READGROUP_DATE
+  value: DT
+  description: The date tag for the SAM header readgroup
+- name: SAM_HEADER_READGROUP_FLOWORDER
+  value: FO
+- name: SAM_HEADER_READGROUP_KEY_SEQUENCE
+  value: KS
+- name: SAM_HEADER_READGROUP_LIBRARY
+  value: LB
+- name: SAM_HEADER_READGROUP_PROGRAMS
+  value: PG
+- name: SAM_HEADER_READGROUP_PREDICTED_INSERTSIZE
+  value: PI
+- name: SAM_HEADER_READGROUP_PLATFORM_TECHNOLOGY
+  value: PL
+- name: SAM_HEADER_READGROUP_PLATFORM_MODEL
+  value: PM
+- name: SAM_HEADER_READGROUP_PLATFORM_UNIT
+  value: PU
+- name: SAM_HEADER_READGROUP_SAMPLE
+  value: SM
+- name: SAM_FLAG_MULTIPLE
+  value: 1
+- name: SAM_FLAG_ALL_PROPERLY_ALIGNED
+  value: 2
+- name: SAM_FLAG_PROPERLY_PAIRED
+  value: 2
+- name: SAM_FLAG_SEGMENT_UNMAPPED
+  value: 4
+- name: SAM_FLAG_NEXT_SEGMENT_UNMAPPED
+  value: 8
+- name: SAM_FLAG_MATE_UNMAPPED
+  value: 8
+- name: SAM_FLAG_CURRENT_REVERSE_STRAND
+  value: 16
+- name: SAM_FLAG_NEXT_REVERSE_STRAND
+  value: 32
+- name: SAM_FLAG_MATE_REVERSE_STRAND
+  value: 32
+- name: SAM_FLAG_FIRST_SEGMENT
+  value: 64
+- name: SAM_FLAG_READ1
+  value: 64
+- name: SAM_FLAG_LAST_SEGMENT
+  value: 128
+- name: SAM_FLAG_READ2
+  value: 128
+- name: SAM_FLAG_SECONDARY_ALIGNMENT
+  value: 256
+- name: SAM_FLAG_NOT_PASSING_FILTERS
+  value: 512
+- name: SAM_FLAG_DUPLICATE
+  value: 1024
+- name: SAM_FLAG_SUPPLEMENTARY_ALIGNMENT
+  value: 2048
+
+enums:
+  - name: SAM_HEADER_SORT_ORDER_TYPE
+    values:
+      -  unknown
+      -  coordinate
+      -  queryname
+      -  strand
+  - name: SAM_HEADER_SUBSORT
+    values:
+      - lexicographical
+      - natural
+      - umi
+  - name: SAM_HEADER_RG_PLATFORM
+    values:
+      - CAPILLARY
+      - DNBSEQ
+      - ELEMENT
+      - HELICOS
+      - ILLUMINA
+      - IONTORRENT
+      - LS454
+      - ONT
+      - PACBIO
+      - SINGULAR
+      - SOLID
+      - ULTIMA
+
+
+outputs:
+  python:
+    path: autogenerated/python/SAM.py
+  javascript:
+    path: autogenerated/javascript/SAM.js
+  c:
+    path: autogenerated/c/SAM.h
+  java:
+    path: autogenerated/java/SAM.java
+  rust:
+    path: autogenerated/rust/SAM.rs
+