hs-samtools-0.8.0.0: src/Data/SAM/Version1_6/Read/Error.hs
{-# LANGUAGE DeriveDataTypeable #-}
{-# LANGUAGE DeriveGeneric #-}
{-# LANGUAGE FlexibleContexts #-}
{-# LANGUAGE FlexibleInstances #-}
{-# LANGUAGE MultiParamTypeClasses #-}
{-# LANGUAGE TypeFamilies #-}
-- |
-- Module : Data.SAM.Version1_6.Read.Error
-- Copyright : (c) Matthew Mosior 2023
-- License : BSD-style
-- Maintainer : mattm.github@gmail.com
-- Portability : portable
--
-- = Description
--
-- This library enables the decoding/encoding of SAM, BAM and CRAM file formats.
module Data.SAM.Version1_6.Read.Error ( -- * SAM version 1.6 data type
SAM_V1_6_Error(..)
) where
import Data.Data
import Generics.Deriving.Base
-- | Custom @"SAM_V1_6"@ (SAM version 1.6) error data type.
-- See the [SAM v1.6](http://samtools.github.io/hts-specs/SAMv1.pdf) specification documentation.
data SAM_V1_6_Error = -- | @HD tag not in accepted format (only important
-- if @HD tag is present).
SAM_V1_6_Error_File_Level_Metadata_Tag_Incorrect_Format
-- | VN tag missing (only important
-- if @HD tag is present).
| SAM_V1_6_Error_File_Level_Metadata_Format_Version_Tag_Missing
-- | VN tag not in accepted format (only important
-- if @HD tag is present).
| SAM_V1_6_Error_File_Level_Metadata_Format_Version_Tag_Incorrect_Format
-- | VN value not in accepted format (only important
-- if @HD tag is present).
| SAM_V1_6_Error_File_Level_Metadata_Format_Version_Value_Incorrect_Format
-- | Sorting order tag not in accepted format (only important
-- if @HD tag is present).
| SAM_V1_6_Error_File_Level_Metadata_Sorting_Order_Tag_Incorrect_Format
-- | Sorting order invalid value (only important
-- if @HD tag is present).
| SAM_V1_6_Error_File_Level_Metadata_Sorting_Order_Invalid_Value
-- | Grouping of alignments no in accepted format (only important
-- if @HD tag is present).
| SAM_V1_6_Error_File_Level_Metadata_Grouping_Of_Alignments_Tag_Incorrect_Format
-- | Grouping of Alignments invalid value (only important
-- if @HD tag is present).
| SAM_V1_6_Error_File_Level_Metadata_Grouping_Of_Alignments_Invalid_Value
-- | Subsorting order tag not in accepted format (only important
-- if @HD tag is present).
| SAM_V1_6_Error_File_Level_Metadata_Subsorting_Order_Tag_Incorrect_Format
-- | Subsorting order of alignments not in accepted format (only
-- if @HD tag is present.
| SAM_V1_6_Error_File_Level_Metadata_Subsorting_Order_Incorrect_Format
-- | SN tag missing (only important
-- if @SQ tag is present).
| SAM_V1_6_Error_Reference_Sequence_Dictionary_Reference_Sequence_Name_Tag_Missing
-- | Reference Sequence Name not in accepted format (only important
-- if @SQ tag is present.
| SAM_V1_6_Error_Reference_Sequence_Dictionary_Reference_Sequence_Name_Incorrect_Format
-- | Reference Sequence Name invalid value (only important
-- if @SQ tag is present).
| SAM_V1_6_Error_Reference_Sequence_Dictionary_Reference_Sequence_Name_Invalid_Value
-- | LN tag missing (only important
-- if @SQ tag is present).
| SAM_V1_6_Error_Reference_Sequence_Dictionary_Reference_Sequence_Length_Missing
-- | Reference Sequence Length not in accepted format (only important
-- if @SQ tag is present.
| SAM_V1_6_Error_Reference_Sequence_Dictionary_Reference_Sequence_Length_Incorrect_Format
-- | Reference Sequence Length invalid value (only important
-- if @SQ tag is present).
| SAM_V1_6_Error_Reference_Sequence_Dictionary_Reference_Sequence_Length_Invalid_Value
-- | Alternative locus not in accepted format (only important
-- if @SQ tag is present).
| SAM_V1_6_Error_Reference_Sequence_Dictionary_Alternative_Locus_Incorrect_Format
-- | Alternative Reference Sequence Names not in accepted format (only important
-- if @SQ tag is present).
| SAM_V1_6_Error_Reference_Sequence_Dictionary_Alternative_Reference_Sequence_Names_Incorrect_Format
-- | Alternative Reference Sequence Names invalid value (only important
-- if @SQ tag is present).
| SAM_V1_6_Error_Reference_Sequence_Dictionary_Alternative_Reference_Sequence_Names_Invalid_Value
-- | Genome Assembly Identifier not in accepted format (only important
-- if @SQ tag is present).
| SAM_V1_6_Error_Reference_Sequence_Dictionary_Genome_Assembly_Identifier_Incorrect_Format
-- | Description not in accepted format (only important
-- if @SQ tag is present).
| SAM_V1_6_Error_Reference_Sequence_Dictionary_Description_Incorrect_Format
-- | MD5 checksum not in accepted format (only important
-- if @SQ tag is present).
| SAM_V1_6_Error_Reference_Sequence_Dictionary_MD5_Checksum_Incorrect_Format
-- | Species not in accepted format (only important
-- if @SQ tag is present).
| SAM_V1_6_Error_Reference_Sequence_Dictionary_Species_Incorrect_Format
-- | Molecule topology not in accepted format (only important
-- if @SQ tag is present).
| SAM_V1_6_Error_Reference_Sequence_Dictionary_Molecule_Topology_Incorrect_Format
-- | Molecule topology invalid value (only important
-- if @SQ tag is present).
| SAM_V1_6_Error_Reference_Sequence_Dictionary_Molecule_Topology_Invalid_Value
-- | URI not in accepted format (only important
-- if @SQ tag is present).
| SAM_V1_6_Error_Reference_Sequence_Dictionary_URI_Incorrect_Format
-- | ID tag not accepted format (only important
-- if @RG tag is present).
| SAM_V1_6_Error_Read_Group_Read_Group_Identifier_Incorrect_Format
-- | ID tag is missing (only important
-- if @RG tag is present).
| SAM_V1_6_Error_Read_Group_Read_Group_Identifier_Tag_Missing
-- | BC tag not in accepted format (only important
-- if @RG tag is present).
| SAM_V1_6_Error_Read_Group_Barcode_Sequence_Incorrect_Format
-- | CN tag not in accepted format (only important
-- if @RG tag is present).
| SAM_V1_6_Error_Read_Group_Sequencing_Center_Incorrect_Format
-- | DS tag not in accepted format (only important
-- if @RG tag is present).
| SAM_V1_6_Error_Read_Group_Description_Incorrect_Format
-- | DT tag not in accepted format (only important
-- if @RG tag is present).
| SAM_V1_6_Error_Read_Group_Date_Run_Produced_Incorrect_Format
-- | FO tag not in accepted format (only important
-- if @RG tag is present).
| SAM_V1_6_Error_Read_Group_Flow_Order_Incorrect_Format
-- | KS tag not in accepted format (only important
-- if @RG tag is present).
| SAM_V1_6_Error_Read_Group_Key_Sequence_Incorrect_Format
-- | LB tag not in accepted format (only important
-- if @RG tag is present).
| SAM_V1_6_Error_Read_Group_Library_Incorrect_Format
-- | PG tag not in accepted format (only important
-- if @RG tag is present).
| SAM_V1_6_Error_Read_Group_Programs_Incorrect_Format
-- | PI tag not in accepted format (only important
-- if @RG tag is present).
| SAM_V1_6_Error_Read_Group_Predicted_Median_Insert_Size_Incorrect_Format
-- | PL tag not in accepted format (only important
-- if @RG tag is present).
| SAM_V1_6_Error_Read_Group_Platform_Incorrect_Format
-- | PM tag not in accepted format (only important
-- if @RG tag is present).
| SAM_V1_6_Error_Read_Group_Platform_Model_Incorrect_Format
-- | PU tag not in accepted format (only important
-- if @RG tag is present).
| SAM_V1_6_Error_Read_Group_Platform_Unit_Incorrect_Format
-- | SM tag not in accepted format (only important
-- if @RG tag is present).
| SAM_V1_6_Error_Read_Group_Sample_Incorrect_Format
-- | RG tag not in accepted format.
| SAM_V1_6_Error_Read_Group_Tag_Incorrect_Format
-- | ID tag not in accepted format (only important
-- if @PG tag is present).
| SAM_V1_6_Error_Program_Identifier_Incorrect_Format
-- | PN tag not in accepted format (only important
-- if @PG tag is present).
| SAM_V1_6_Error_Program_Name_Incorrect_Format
-- | CL tag not in accepted format (only important
-- if @PG tag is present).
| SAM_V1_6_Error_Program_Command_Line_Incorrect_Format
-- | PP tag not in accepted format (only important
-- if @PG tag is present).
| SAM_V1_6_Error_Program_Previous_PG_ID_Incorrect_Format
-- | DS tag not in accepted format (only important
-- if @PG tag is present).
| SAM_V1_6_Error_Program_Description_Incorrect_Format
-- | VN tag not in accepted format (only important
-- if @PG tag is present).
| SAM_V1_6_Error_Program_Version_Incorrect_Format
-- | PG tag not in accepted format.
| SAM_V1_6_Error_Program_Tag_Incorrect_Format
-- | CO tag not in accepted format.
| SAM_V1_6_Error_One_Line_Comment_Tag_Incorrect_Format
-- | QNAME of alignment section not in accepted format.
| SAM_V1_6_Error_Alignment_QNAME_Incorrect_Format
-- | FLAG of alignment section not in accepted format.
| SAM_V1_6_Error_Alignment_FLAG_Incorrect_Format
-- | RNAME of alignment section not in accepted format.
| SAM_V1_6_Error_Alignment_RNAME_Incorrect_Format
-- | POS of alignment section not in accepted format.
| SAM_V1_6_Error_Alignment_POS_Incorrect_Format
-- | MAPQ of alignment section not in accepted format.
| SAM_V1_6_Error_Alignment_MAPQ_Incorrect_Format
-- | CIGAR of alignment section not in accepted format.
| SAM_V1_6_Error_Alignment_CIGAR_Incorrect_Format
-- | RNEXT of alignment section not in accepted format.
| SAM_V1_6_Error_Alignment_RNEXT_Incorrect_Format
-- | PNEXT of alignment section not in accepted format.
| SAM_V1_6_Error_Alignment_PNEXT_Incorrect_Format
-- | TLEN of alignment section not in accpepted format.
| SAM_V1_6_Error_Alignment_TLEN_Incorrect_Format
-- | SEQ of alignment section not in accepted format.
| SAM_V1_6_Error_Alignment_SEQ_Incorrect_Format
-- | QUAL of alignment section not in accepted format.
| SAM_V1_6_Error_Alignment_QUAL_Incorrect_Format
-- | AOPT tag of the alignment section not in accepted format.
| SAM_V1_6_Error_Alignment_AOPT_Tag_Incorrect_Format
-- | AOPT type of the alignment section not in accepted format.
| SAM_V1_6_Error_Alignment_AOPT_Type_Incorrect_Format
-- | AOPT value of the alignment section not in accepted format.
| SAM_V1_6_Error_Alignment_AOPT_Value_Incorrect_Format
-- | IOPT tag of the alignment section not in accepted format.
| SAM_V1_6_Error_Alignment_IOPT_Tag_Incorrect_Format
-- | IOPT type of the alignment section not in accepted format.
| SAM_V1_6_Error_Alignment_IOPT_Type_Incorrect_Format
-- | IOPT value of the alignment section not in accepted format.
| SAM_V1_6_Error_Alignment_IOPT_Value_Incorrect_Format
-- | FOPT tag of the alignment section not in accepted format.
| SAM_V1_6_Error_Alignment_FOPT_Tag_Incorrect_Format
-- | FOPT type of the alignment section not in accepted format.
| SAM_V1_6_Error_Alignment_FOPT_Type_Incorrect_Format
-- | FOPT value of the alignment section not in accepted format.
| SAM_V1_6_Error_Alignment_FOPT_Value_Incorrect_Format
-- | ZOPT tag of the alignment section not in accepted format.
| SAM_V1_6_Error_Alignment_ZOPT_Tag_Incorrect_Format
-- | ZOPT type of the alignment section not in accepted format.
| SAM_V1_6_Error_Alignment_ZOPT_Type_Incorrect_Format
-- | ZOPT value of the alignment section not in accepted format.
| SAM_V1_6_Error_Alignment_ZOPT_Value_Incorrect_Format
-- | HOPT tag of the alignment section not in accepted format.
| SAM_V1_6_Error_Alignment_HOPT_Tag_Incorrect_Format
-- | HOPT type of the alignment section not in accepted format.
| SAM_V1_6_Error_Alignment_HOPT_Type_Incorrect_Format
-- | HOPT value of the alignment section not in accepted format.
| SAM_V1_6_Error_Alignment_HOPT_Value_Incorrect_Format
-- | BOPT tag of the alignment section not in accepted format.
| SAM_V1_6_Error_Alignment_BOPT_Tag_Incorrect_Format
-- | BOPT type of the alignment section not in accepted format.
| SAM_V1_6_Error_Alignment_BOPT_Type_Incorrect_Format
-- | BOPT value type of the alignment section not in accepted format.
| SAM_V1_6_Error_Alignment_BOPT_Value_Type_Incorrect_Format
-- | BOPT value data of the alignment section not in accepted format.
| SAM_V1_6_Error_Alignment_BOPT_Value_Data_Incorrect_Format
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