Copyright | (c) Matthew Mosior 2024 |
---|---|
License | BSD-style |
Maintainer | mattm.github@gmail.com |
Portability | portable |
Safe Haskell | Safe-Inferred |
Language | Haskell2010 |
Data.BAM.Version1_6.Read.Error
Contents
Description
Description
This library enables the decoding/encoding of SAM, BAM and CRAM file formats.
Synopsis
- data BAM_V1_6_Read_Error
- = BAM_V1_6_Read_Error_GZipHeader_ID1_Incorrect_Format
- | BAM_V1_6_Read_Error_GZipHeader_ID2_Incorrect_Format
- | BAM_V1_6_Read_Error_GZipHeader_Compression_Method_Incorrect_Format
- | BAM_V1_6_Read_Error_GZipHeader_Flag_Incorrect_Format
- | BAM_V1_6_Read_Error_GZipHeader_Modification_TIME_Incorrect_Format
- | BAM_V1_6_Read_Error_GZipHeader_Extra_Flags_Incorrect_Format
- | BAM_V1_6_Read_Error_GZipHeader_Operating_System_Incorrect_Format
- | BAM_V1_6_Read_Error_GZipHeader_Extra_Length_Incorrect_Format
- | BAM_V1_6_Read_Error_GZipHeader_Subfield_Identifier_1_Incorrect_Format
- | BAM_V1_6_Read_Error_GZipHeader_Subfield_Identifier_2_Incorrect_Format
- | BAM_V1_6_Read_Error_GZipHeader_Subfield_Length_Incorrect_Format
- | BAM_V1_6_Read_Error_GZipHeader_Total_Block_SIZE_Minus_1_Incorrect_Format
- | BAM_V1_6_Read_Error_GZipHeader_Compressed_DATA_Incorrect_Format
- | BAM_V1_6_Read_Error_File_Level_Metadata_Tag_Incorrect_Format
- | BAM_V1_6_Read_Error_File_Level_Metadata_Format_Version_Tag_Missing
- | BAM_V1_6_Read_Error_File_Level_Metadata_Format_Version_Tag_Incorrect_Format
- | BAM_V1_6_Read_Error_File_Level_Metadata_Format_Version_Value_Incorrect_Format
- | BAM_V1_6_Read_Error_File_Level_Metadata_Sorting_Order_Tag_Incorrect_Format
- | BAM_V1_6_Read_Error_File_Level_Metadata_Sorting_Order_Invalid_Value
- | BAM_V1_6_Read_Error_File_Level_Metadata_Grouping_Of_Alignments_Tag_Incorrect_Format
- | BAM_V1_6_Read_Error_File_Level_Metadata_Grouping_Of_Alignments_Invalid_Value
- | BAM_V1_6_Read_Error_File_Level_Metadata_Subsorting_Order_Tag_Incorrect_Format
- | BAM_V1_6_Read_Error_File_Level_Metadata_Subsorting_Order_Incorrect_Format
- | BAM_V1_6_Read_Error_BAMHeader_BAM_Magic_String_Invalid_Value
- | BAM_V1_6_Read_Error_Reference_Sequence_Dictionary_Reference_Sequence_Name_Tag_Missing
- | BAM_V1_6_Read_Error_Reference_Sequence_Dictionary_Reference_Sequence_Name_Incorrect_Format
- | BAM_V1_6_Read_Error_Reference_Sequence_Dictionary_Reference_Sequence_Name_Invalid_Value
- | BAM_V1_6_Error_Reference_Sequence_Dictionary_Reference_Sequence_Length_Missing
- | BAM_V1_6_Read_Error_Reference_Sequence_Dictionary_Reference_Sequence_Length_Incorrect_Format
- | BAM_V1_6_Read_Error_Reference_Sequence_Dictionary_Reference_Sequence_Length_Invalid_Value
- | BAM_V1_6_Read_Error_Reference_Sequence_Dictionary_Alternative_Locus_Incorrect_Format
- | BAM_V1_6_Read_Error_Reference_Sequence_Dictionary_Alternative_Reference_Sequence_Names_Incorrect_Format
- | BAM_V1_6_Read_Error_Reference_Sequence_Dictionary_Alternative_Reference_Sequence_Names_Invalid_Value
- | BAM_V1_6_Read_Error_Reference_Sequence_Dictionary_Genome_Assembly_Identifier_Incorrect_Format
- | BAM_V1_6_Read_Error_Reference_Sequence_Dictionary_Description_Incorrect_Format
- | BAM_V1_6_Read_Error_Reference_Sequence_Dictionary_MD5_Checksum_Incorrect_Format
- | BAM_V1_6_Read_Error_Reference_Sequence_Dictionary_Species_Incorrect_Format
- | BAM_V1_6_Read_Error_Reference_Sequence_Dictionary_Molecule_Topology_Incorrect_Format
- | BAM_V1_6_Read_Error_Reference_Sequence_Dictionary_Molecule_Topology_Invalid_Value
- | BAM_V1_6_Read_Error_Reference_Sequence_Dictionary_URI_Incorrect_Format
- | BAM_V1_6_Read_Error_Read_Group_Read_Group_Identifier_Incorrect_Format
- | BAM_V1_6_Read_Error_Read_Group_Read_Group_Identifier_Tag_Missing
- | BAM_V1_6_Read_Error_Read_Group_Barcode_Sequence_Incorrect_Format
- | BAM_V1_6_Read_Error_Read_Group_Sequencing_Center_Incorrect_Format
- | BAM_V1_6_Read_Error_Read_Group_Description_Incorrect_Format
- | BAM_V1_6_Read_Error_Read_Group_Date_Run_Produced_Incorrect_Format
- | BAM_V1_6_Read_Error_Read_Group_Flow_Order_Incorrect_Format
- | BAM_V1_6_Read_Error_Read_Group_Key_Sequence_Incorrect_Format
- | BAM_V1_6_Read_Error_Read_Group_Library_Incorrect_Format
- | BAM_V1_6_Read_Error_Read_Group_Programs_Incorrect_Format
- | BAM_V1_6_Read_Error_Read_Group_Predicted_Median_Insert_Size_Incorrect_Format
- | BAM_V1_6_Read_Error_Read_Group_Platform_Incorrect_Format
- | BAM_V1_6_Read_Error_Read_Group_Platform_Model_Incorrect_Format
- | BAM_V1_6_Read_Error_Read_Group_Platform_Unit_Incorrect_Format
- | BAM_V1_6_Read_Error_Read_Group_Sample_Incorrect_Format
- | BAM_V1_6_Read_Error_Read_Group_Tag_Incorrect_Format
- | BAM_V1_6_Read_Error_Program_Identifier_Incorrect_Format
- | BAM_V1_6_Read_Error_Program_Name_Incorrect_Format
- | BAM_V1_6_Read_Error_Program_Command_Line_Incorrect_Format
- | BAM_V1_6_Read_Error_Program_Previous_PG_ID_Incorrect_Format
- | BAM_V1_6_Read_Error_Program_Description_Incorrect_Format
- | BAM_V1_6_Read_Error_Program_Version_Incorrect_Format
- | BAM_V1_6_Read_Error_Program_Tag_Incorrect_Format
- | BAM_V1_6_Read_Error_One_Line_Comment_Tag_Incorrect_Format
- | BAM_V1_6_Read_Error_Alignment_QNAME_Incorrect_Format
- | BAM_V1_6_Read_Error_Alignment_FLAG_Incorrect_Format
- | BAM_V1_6_Read_Error_Alignment_RNAME_Incorrect_Format
- | BAM_V1_6_Read_Error_Alignment_POS_Incorrect_Format
- | BAM_V1_6_Read_Error_Alignment_MAPQ_Incorrect_Format
- | BAM_V1_6_Read_Error_Alignment_CIGAR_Incorrect_Format
- | BAM_V1_6_Read_Error_Alignment_RNEXT_Incorrect_Format
- | BAM_V1_6_Read_Error_Alignment_PNEXT_Incorrect_Format
- | BAM_V1_6_Read_Error_Alignment_TLEN_Incorrect_Format
- | BAM_V1_6_Read_Error_Alignment_SEQ_Incorrect_Format
- | BAM_V1_6_Read_Error_Alignment_QUAL_Incorrect_Format
- | BAM_V1_6_Read_Error_Alignment_OptionalFields_Missing_Type
- | BAM_V1_6_Read_Error_Alignment_OptionalFields_BOPT_Missing_Type
- | BAM_V1_6_Read_Error_Alignment_OptionalFields_Index_Missing
- | BAM_V1_6_Read_Error_Alignment_OptionalFields_Remaining_Bytes
- | BAM_V1_6_Read_Error_Alignment_AOPT_Tag_Incorrect_Format
- | BAM_V1_6_Read_Error_Alignment_AOPT_Type_Incorrect_Format
- | BAM_V1_6_Read_Error_Alignment_AOPT_Value_Incorrect_Format
- | BAM_V1_6_Read_Error_Alignment_BigCOPT_Tag_Incorrect_Format
- | BAM_V1_6_Read_Error_Alignment_BigCOPT_Type_Incorrect_Format
- | BAM_V1_6_Read_Error_Alignment_BigIOPT_Tag_Incorrect_Format
- | BAM_V1_6_Read_Error_Alignment_BigIOPT_Type_Incorrect_Format
- | BAM_V1_6_Read_Error_Alignment_BigSOPT_Tag_Incorrect_Format
- | BAM_V1_6_Read_Error_Alignment_BigSOPT_Type_Incorrect_Format
- | BAM_V1_6_Read_Error_Alignment_SmallCOPT_Tag_Incorrect_Format
- | BAM_V1_6_Read_Error_Alignment_SmallCOPT_Type_Incorrect_Format
- | BAM_V1_6_Read_Error_Alignment_SmallIOPT_Tag_Incorrect_Format
- | BAM_V1_6_Read_Error_Alignment_SmallIOPT_Type_Incorrect_Format
- | BAM_V1_6_Read_Error_Alignment_SmallSOPT_Tag_Incorrect_Format
- | BAM_V1_6_Read_Error_Alignment_SmallSOPT_Type_Incorrect_Format
- | BAM_V1_6_Read_Error_Alignment_FOPT_Tag_Incorrect_Format
- | BAM_V1_6_Read_Error_Alignment_FOPT_Type_Incorrect_Format
- | BAM_V1_6_Read_Error_Alignment_FOPT_Value_Incorrect_Format
- | BAM_V1_6_Read_Error_Alignment_ZOPT_Tag_Incorrect_Format
- | BAM_V1_6_Read_Error_Alignment_ZOPT_Type_Incorrect_Format
- | BAM_V1_6_Read_Error_Alignment_ZOPT_Value_Incorrect_Format
- | BAM_V1_6_Read_Error_Alignment_HOPT_Tag_Incorrect_Format
- | BAM_V1_6_Read_Error_Alignment_HOPT_Type_Incorrect_Format
- | BAM_V1_6_Read_Error_Alignment_HOPT_Value_Incorrect_Format
- | BAM_V1_6_Read_Error_Alignment_BOPT_Tag_Incorrect_Format
- | BAM_V1_6_Read_Error_Alignment_BOPT_Type_Incorrect_Format
- | BAM_V1_6_Read_Error_Alignment_BOPT_Value_Type_Incorrect_Format
- | BAM_V1_6_Read_Error_Alignment_BOPT_Value_Data_Incorrect_Format
- | BAM_V1_6_Read_Error_CDATA_Incorrect_Format
- | BAM_V1_6_Read_Error_CDATA_BAM_Alignment_Optional_Fields_Incorrect_Format
- | BAM_V1_6_Read_Error_GZipHeader_CRC32_Incorrect_Format
- | BAM_V1_6_Read_Error_GZipHeader_Input_Size_Incorrect_Format
- | BAM_V1_6_Read_Error_Calculated_CRC32_Not_Equivalent_To_CRC32
- | BAM_V1_6_Read_Error_End_Of_File_Marker_Incorrect_Format
BAM version 1.6 data type
data BAM_V1_6_Read_Error Source #
Custom BAM_V1_6_Read_Error
(BAM version 1.6) error data type.
See the SAM v1.6 specification documentation.
Constructors
BAM_V1_6_Read_Error_GZipHeader_ID1_Incorrect_Format | Identification 1 (IDentification 1; ID1) field of the GZip header not in accepted format. |
BAM_V1_6_Read_Error_GZipHeader_ID2_Incorrect_Format | Identification 2 (IDentification 2; ID2) field of the GZip header not in accepted format. |
BAM_V1_6_Read_Error_GZipHeader_Compression_Method_Incorrect_Format | Compression Method (CM) field of the GZip header not in accepted format. |
BAM_V1_6_Read_Error_GZipHeader_Flag_Incorrect_Format | Flag (FLG) field of the GZip header not in accepted format. |
BAM_V1_6_Read_Error_GZipHeader_Modification_TIME_Incorrect_Format | Modification TIME (MTIME) field of the GZip header not in accepted format. |
BAM_V1_6_Read_Error_GZipHeader_Extra_Flags_Incorrect_Format | Extra flags (eXtra FLags; XFL) field of the GZip header not in accepted format. |
BAM_V1_6_Read_Error_GZipHeader_Operating_System_Incorrect_Format | Operating System (OS) field of the GZip header not in accepted format. |
BAM_V1_6_Read_Error_GZipHeader_Extra_Length_Incorrect_Format | Extra Length (eXtra LENgth; XLEN) field of the GZip header is not in accepted format. |
BAM_V1_6_Read_Error_GZipHeader_Subfield_Identifier_1_Incorrect_Format | Subfield Identifier 1 (Subfield Identifier1; SI1) field of the GZip header is not in accepted format. |
BAM_V1_6_Read_Error_GZipHeader_Subfield_Identifier_2_Incorrect_Format | Subfield Identifier 2 (Subfield Identifier2; SI2) field of the GZip header is not in accepted format. |
BAM_V1_6_Read_Error_GZipHeader_Subfield_Length_Incorrect_Format | Subfield Length (Subfield LENgth; SLEN) field of the GZip header is not in accepted format. |
BAM_V1_6_Read_Error_GZipHeader_Total_Block_SIZE_Minus_1_Incorrect_Format | Total block size minus 1 (total Block SIZE minus 1; BSIZE) field of the GZip header is not in accepted format. |
BAM_V1_6_Read_Error_GZipHeader_Compressed_DATA_Incorrect_Format | Compressed DATA by zlib::deflate() (CDATA) is not in accepted format. |
BAM_V1_6_Read_Error_File_Level_Metadata_Tag_Incorrect_Format |
|
BAM_V1_6_Read_Error_File_Level_Metadata_Format_Version_Tag_Missing | VN tag missing (only important if @HD tag is present). |
BAM_V1_6_Read_Error_File_Level_Metadata_Format_Version_Tag_Incorrect_Format | VN tag not in accepted format (only important if @HD tag is present). |
BAM_V1_6_Read_Error_File_Level_Metadata_Format_Version_Value_Incorrect_Format | VN value not in accepted format (only important if @HD tag is present). |
BAM_V1_6_Read_Error_File_Level_Metadata_Sorting_Order_Tag_Incorrect_Format | Sorting order tag not in accepted format (only important if @HD tag is present). |
BAM_V1_6_Read_Error_File_Level_Metadata_Sorting_Order_Invalid_Value | Sorting order invalid value (only important if @HD tag is present). |
BAM_V1_6_Read_Error_File_Level_Metadata_Grouping_Of_Alignments_Tag_Incorrect_Format | Grouping of alignments no in accepted format (only important if @HD tag is present). |
BAM_V1_6_Read_Error_File_Level_Metadata_Grouping_Of_Alignments_Invalid_Value | Grouping of Alignments invalid value (only important if @HD tag is present). |
BAM_V1_6_Read_Error_File_Level_Metadata_Subsorting_Order_Tag_Incorrect_Format | Subsorting order tag not in accepted format (only important if @HD tag is present). |
BAM_V1_6_Read_Error_File_Level_Metadata_Subsorting_Order_Incorrect_Format | Subsorting order of alignments not in accepted format (only if @HD tag is present. |
BAM_V1_6_Read_Error_BAMHeader_BAM_Magic_String_Invalid_Value | The BAM magic string in the BAM header is not BAMSOH (BAM1). |
BAM_V1_6_Read_Error_Reference_Sequence_Dictionary_Reference_Sequence_Name_Tag_Missing | SN tag missing (only important if @SQ tag is present). |
BAM_V1_6_Read_Error_Reference_Sequence_Dictionary_Reference_Sequence_Name_Incorrect_Format | Reference Sequence Name not in accepted format (only important if @SQ tag is present. |
BAM_V1_6_Read_Error_Reference_Sequence_Dictionary_Reference_Sequence_Name_Invalid_Value | Reference Sequence Name invalid value (only important if @SQ tag is present). |
BAM_V1_6_Error_Reference_Sequence_Dictionary_Reference_Sequence_Length_Missing | LN tag missing (only important if @SQ tag is present). |
BAM_V1_6_Read_Error_Reference_Sequence_Dictionary_Reference_Sequence_Length_Incorrect_Format | Reference Sequence Length not in accepted format (only important if @SQ tag is present. |
BAM_V1_6_Read_Error_Reference_Sequence_Dictionary_Reference_Sequence_Length_Invalid_Value | Reference Sequence Length invalid value (only important if @SQ tag is present). |
BAM_V1_6_Read_Error_Reference_Sequence_Dictionary_Alternative_Locus_Incorrect_Format | Alternative locus not in accepted format (only important if @SQ tag is present). |
BAM_V1_6_Read_Error_Reference_Sequence_Dictionary_Alternative_Reference_Sequence_Names_Incorrect_Format | Alternative Reference Sequence Names not in accepted format (only important if @SQ tag is present). |
BAM_V1_6_Read_Error_Reference_Sequence_Dictionary_Alternative_Reference_Sequence_Names_Invalid_Value | Alternative Reference Sequence Names invalid value (only important if @SQ tag is present). |
BAM_V1_6_Read_Error_Reference_Sequence_Dictionary_Genome_Assembly_Identifier_Incorrect_Format | Genome Assembly Identifier not in accepted format (only important if @SQ tag is present). |
BAM_V1_6_Read_Error_Reference_Sequence_Dictionary_Description_Incorrect_Format | Description not in accepted format (only important if @SQ tag is present). |
BAM_V1_6_Read_Error_Reference_Sequence_Dictionary_MD5_Checksum_Incorrect_Format | MD5 checksum not in accepted format (only important if @SQ tag is present). |
BAM_V1_6_Read_Error_Reference_Sequence_Dictionary_Species_Incorrect_Format | Species not in accepted format (only important if @SQ tag is present). |
BAM_V1_6_Read_Error_Reference_Sequence_Dictionary_Molecule_Topology_Incorrect_Format | Molecule topology not in accepted format (only important if @SQ tag is present). |
BAM_V1_6_Read_Error_Reference_Sequence_Dictionary_Molecule_Topology_Invalid_Value | Molecule topology invalid value (only important if @SQ tag is present). |
BAM_V1_6_Read_Error_Reference_Sequence_Dictionary_URI_Incorrect_Format | URI not in accepted format (only important if @SQ tag is present). |
BAM_V1_6_Read_Error_Read_Group_Read_Group_Identifier_Incorrect_Format | ID tag not accepted format (only important if @RG tag is present). |
BAM_V1_6_Read_Error_Read_Group_Read_Group_Identifier_Tag_Missing | ID tag is missing (only important if @RG tag is present). |
BAM_V1_6_Read_Error_Read_Group_Barcode_Sequence_Incorrect_Format | BC tag not in accepted format (only important if @RG tag is present). |
BAM_V1_6_Read_Error_Read_Group_Sequencing_Center_Incorrect_Format | CN tag not in accepted format (only important if @RG tag is present). |
BAM_V1_6_Read_Error_Read_Group_Description_Incorrect_Format | DS tag not in accepted format (only important if @RG tag is present). |
BAM_V1_6_Read_Error_Read_Group_Date_Run_Produced_Incorrect_Format | DT tag not in accepted format (only important if @RG tag is present). |
BAM_V1_6_Read_Error_Read_Group_Flow_Order_Incorrect_Format | FO tag not in accepted format (only important if @RG tag is present). |
BAM_V1_6_Read_Error_Read_Group_Key_Sequence_Incorrect_Format | KS tag not in accepted format (only important if @RG tag is present). |
BAM_V1_6_Read_Error_Read_Group_Library_Incorrect_Format | LB tag not in accepted format (only important if @RG tag is present). |
BAM_V1_6_Read_Error_Read_Group_Programs_Incorrect_Format | PG tag not in accepted format (only important if @RG tag is present). |
BAM_V1_6_Read_Error_Read_Group_Predicted_Median_Insert_Size_Incorrect_Format | PI tag not in accepted format (only important if @RG tag is present). |
BAM_V1_6_Read_Error_Read_Group_Platform_Incorrect_Format | PL tag not in accepted format (only important if @RG tag is present). |
BAM_V1_6_Read_Error_Read_Group_Platform_Model_Incorrect_Format | PM tag not in accepted format (only important if @RG tag is present). |
BAM_V1_6_Read_Error_Read_Group_Platform_Unit_Incorrect_Format | PU tag not in accepted format (only important if @RG tag is present). |
BAM_V1_6_Read_Error_Read_Group_Sample_Incorrect_Format | SM tag not in accepted format (only important if @RG tag is present). |
BAM_V1_6_Read_Error_Read_Group_Tag_Incorrect_Format | RG tag not in accepted format. |
BAM_V1_6_Read_Error_Program_Identifier_Incorrect_Format | ID tag not in accepted format (only important if @PG tag is present). |
BAM_V1_6_Read_Error_Program_Name_Incorrect_Format | PN tag not in accepted format (only important if @PG tag is present). |
BAM_V1_6_Read_Error_Program_Command_Line_Incorrect_Format | CL tag not in accepted format (only important if @PG tag is present). |
BAM_V1_6_Read_Error_Program_Previous_PG_ID_Incorrect_Format | PP tag not in accepted format (only important if @PG tag is present). |
BAM_V1_6_Read_Error_Program_Description_Incorrect_Format | DS tag not in accepted format (only important if @PG tag is present). |
BAM_V1_6_Read_Error_Program_Version_Incorrect_Format | VN tag not in accepted format (only important if @PG tag is present). |
BAM_V1_6_Read_Error_Program_Tag_Incorrect_Format | PG tag not in accepted format. |
BAM_V1_6_Read_Error_One_Line_Comment_Tag_Incorrect_Format | CO tag not in accepted format. |
BAM_V1_6_Read_Error_Alignment_QNAME_Incorrect_Format | QNAME of alignment section not in accepted format. |
BAM_V1_6_Read_Error_Alignment_FLAG_Incorrect_Format | FLAG of alignment section not in accepted format. |
BAM_V1_6_Read_Error_Alignment_RNAME_Incorrect_Format | RNAME of alignment section not in accepted format. |
BAM_V1_6_Read_Error_Alignment_POS_Incorrect_Format | POS of alignment section not in accepted format. |
BAM_V1_6_Read_Error_Alignment_MAPQ_Incorrect_Format | MAPQ of alignment section not in accepted format. |
BAM_V1_6_Read_Error_Alignment_CIGAR_Incorrect_Format | CIGAR of alignment section not in accepted format. |
BAM_V1_6_Read_Error_Alignment_RNEXT_Incorrect_Format | RNEXT of alignment section not in accepted format. |
BAM_V1_6_Read_Error_Alignment_PNEXT_Incorrect_Format | PNEXT of alignment section not in accepted format. |
BAM_V1_6_Read_Error_Alignment_TLEN_Incorrect_Format | TLEN of alignment section not in accpepted format. |
BAM_V1_6_Read_Error_Alignment_SEQ_Incorrect_Format | SEQ of alignment section not in accepted format. |
BAM_V1_6_Read_Error_Alignment_QUAL_Incorrect_Format | QUAL of alignment section not in accepted format. |
BAM_V1_6_Read_Error_Alignment_OptionalFields_Missing_Type | Optional field is missing a type. |
BAM_V1_6_Read_Error_Alignment_OptionalFields_BOPT_Missing_Type | Optional field BOPT is missing a type. |
BAM_V1_6_Read_Error_Alignment_OptionalFields_Index_Missing | Optional field doesn't have a type. |
BAM_V1_6_Read_Error_Alignment_OptionalFields_Remaining_Bytes | Optional field has left-over bytes following parsing. |
BAM_V1_6_Read_Error_Alignment_AOPT_Tag_Incorrect_Format | AOPT tag of the alignment section not in accepted format. |
BAM_V1_6_Read_Error_Alignment_AOPT_Type_Incorrect_Format | AOPT type of the alignment section not in accepted format. |
BAM_V1_6_Read_Error_Alignment_AOPT_Value_Incorrect_Format | AOPT value of the alignment section not in accepted format. |
BAM_V1_6_Read_Error_Alignment_BigCOPT_Tag_Incorrect_Format | BigCOPT tag of the alignment section not in accepted format. |
BAM_V1_6_Read_Error_Alignment_BigCOPT_Type_Incorrect_Format | BigCOPT type of the alignment section not in accepted format. |
BAM_V1_6_Read_Error_Alignment_BigIOPT_Tag_Incorrect_Format | BigIOPT tag of the alignment section not in accepted format. |
BAM_V1_6_Read_Error_Alignment_BigIOPT_Type_Incorrect_Format | BigIOPT type of the alignment section not in accepted format. |
BAM_V1_6_Read_Error_Alignment_BigSOPT_Tag_Incorrect_Format | BigSOPT tag of the alignment section not in accepted format. |
BAM_V1_6_Read_Error_Alignment_BigSOPT_Type_Incorrect_Format | BigSOPT type of the alignment section not in accepted format. |
BAM_V1_6_Read_Error_Alignment_SmallCOPT_Tag_Incorrect_Format | SmallCOPT tag of the alignment section not in accepted format. |
BAM_V1_6_Read_Error_Alignment_SmallCOPT_Type_Incorrect_Format | SmallCOPT type of the alignment section not in accepted format. |
BAM_V1_6_Read_Error_Alignment_SmallIOPT_Tag_Incorrect_Format | SmallIOPT tag of the alignment section not in accepted format. |
BAM_V1_6_Read_Error_Alignment_SmallIOPT_Type_Incorrect_Format | SmallIOPT type of the alignment section not in accepted format. |
BAM_V1_6_Read_Error_Alignment_SmallSOPT_Tag_Incorrect_Format | SmallSOPT tag of the alignment section not in accepted format. |
BAM_V1_6_Read_Error_Alignment_SmallSOPT_Type_Incorrect_Format | SmallSOPT type of the alignment section not in accepted format. |
BAM_V1_6_Read_Error_Alignment_FOPT_Tag_Incorrect_Format | FOPT tag of the alignment section not in accepted format. |
BAM_V1_6_Read_Error_Alignment_FOPT_Type_Incorrect_Format | FOPT type of the alignment section not in accepted format. |
BAM_V1_6_Read_Error_Alignment_FOPT_Value_Incorrect_Format | FOPT value of the alignment section not in accepted format. |
BAM_V1_6_Read_Error_Alignment_ZOPT_Tag_Incorrect_Format | ZOPT tag of the alignment section not in accepted format. |
BAM_V1_6_Read_Error_Alignment_ZOPT_Type_Incorrect_Format | ZOPT type of the alignment section not in accepted format. |
BAM_V1_6_Read_Error_Alignment_ZOPT_Value_Incorrect_Format | ZOPT value of the alignment section not in accepted format. |
BAM_V1_6_Read_Error_Alignment_HOPT_Tag_Incorrect_Format | HOPT tag of the alignment section not in accepted format. |
BAM_V1_6_Read_Error_Alignment_HOPT_Type_Incorrect_Format | HOPT type of the alignment section not in accepted format. |
BAM_V1_6_Read_Error_Alignment_HOPT_Value_Incorrect_Format | HOPT value of the alignment section not in accepted format. |
BAM_V1_6_Read_Error_Alignment_BOPT_Tag_Incorrect_Format | BOPT tag of the alignment section not in accepted format. |
BAM_V1_6_Read_Error_Alignment_BOPT_Type_Incorrect_Format | BOPT type of the alignment section not in accepted format. |
BAM_V1_6_Read_Error_Alignment_BOPT_Value_Type_Incorrect_Format | BOPT value type of the alignment section not in accepted format. |
BAM_V1_6_Read_Error_Alignment_BOPT_Value_Data_Incorrect_Format | BOPT value data of the alignment section not in accepted format. |
BAM_V1_6_Read_Error_CDATA_Incorrect_Format | The CDATA field of a BGZF block not in accepted format. |
BAM_V1_6_Read_Error_CDATA_BAM_Alignment_Optional_Fields_Incorrect_Format | A CDATA BAM block alignment optional fields are not in accepted format. |
BAM_V1_6_Read_Error_GZipHeader_CRC32_Incorrect_Format | CRC-32 (CRC32) field of the GZip header not in accepted format. |
BAM_V1_6_Read_Error_GZipHeader_Input_Size_Incorrect_Format | Input Size (Input SIZE, i.e. length of uncompressed data) not in accepted format. |
BAM_V1_6_Read_Error_Calculated_CRC32_Not_Equivalent_To_CRC32 | The calculated crc32 of the uncompressed CDATA is not equivalent to the CRC32 field of the BGZF block. |
BAM_V1_6_Read_Error_End_Of_File_Marker_Incorrect_Format | The last 28 bytes of the BAM file are not equivalent to the standardized 28 byte end-of-file marker. |
Instances
Generic BAM_V1_6_Read_Error Source # | |
Defined in Data.BAM.Version1_6.Read.Error Associated Types type Rep BAM_V1_6_Read_Error :: Type -> Type # Methods from :: BAM_V1_6_Read_Error -> Rep BAM_V1_6_Read_Error x # to :: Rep BAM_V1_6_Read_Error x -> BAM_V1_6_Read_Error # | |
Show BAM_V1_6_Read_Error Source # | |
Defined in Data.BAM.Version1_6.Read.Error Methods showsPrec :: Int -> BAM_V1_6_Read_Error -> ShowS # show :: BAM_V1_6_Read_Error -> String # showList :: [BAM_V1_6_Read_Error] -> ShowS # | |
Eq BAM_V1_6_Read_Error Source # | |
Defined in Data.BAM.Version1_6.Read.Error Methods (==) :: BAM_V1_6_Read_Error -> BAM_V1_6_Read_Error -> Bool # (/=) :: BAM_V1_6_Read_Error -> BAM_V1_6_Read_Error -> Bool # | |
type Rep BAM_V1_6_Read_Error Source # | |
Defined in Data.BAM.Version1_6.Read.Error type Rep BAM_V1_6_Read_Error = D1 ('MetaData "BAM_V1_6_Read_Error" "Data.BAM.Version1_6.Read.Error" "hs-samtools-0.10.0.3-inplace" 'False) ((((((C1 ('MetaCons "BAM_V1_6_Read_Error_GZipHeader_ID1_Incorrect_Format" 'PrefixI 'False) (U1 :: Type -> Type) :+: (C1 ('MetaCons "BAM_V1_6_Read_Error_GZipHeader_ID2_Incorrect_Format" 'PrefixI 'False) (U1 :: Type -> Type) :+: C1 ('MetaCons "BAM_V1_6_Read_Error_GZipHeader_Compression_Method_Incorrect_Format" 'PrefixI 'False) (U1 :: Type -> Type))) :+: ((C1 ('MetaCons "BAM_V1_6_Read_Error_GZipHeader_Flag_Incorrect_Format" 'PrefixI 'False) (U1 :: Type -> Type) :+: C1 ('MetaCons "BAM_V1_6_Read_Error_GZipHeader_Modification_TIME_Incorrect_Format" 'PrefixI 'False) (U1 :: Type -> Type)) :+: (C1 ('MetaCons "BAM_V1_6_Read_Error_GZipHeader_Extra_Flags_Incorrect_Format" 'PrefixI 'False) (U1 :: Type -> Type) :+: C1 ('MetaCons "BAM_V1_6_Read_Error_GZipHeader_Operating_System_Incorrect_Format" 'PrefixI 'False) (U1 :: Type -> Type)))) :+: ((C1 ('MetaCons "BAM_V1_6_Read_Error_GZipHeader_Extra_Length_Incorrect_Format" 'PrefixI 'False) (U1 :: Type -> Type) :+: (C1 ('MetaCons "BAM_V1_6_Read_Error_GZipHeader_Subfield_Identifier_1_Incorrect_Format" 'PrefixI 'False) (U1 :: Type -> Type) :+: C1 ('MetaCons "BAM_V1_6_Read_Error_GZipHeader_Subfield_Identifier_2_Incorrect_Format" 'PrefixI 'False) (U1 :: Type -> Type))) :+: ((C1 ('MetaCons "BAM_V1_6_Read_Error_GZipHeader_Subfield_Length_Incorrect_Format" 'PrefixI 'False) (U1 :: Type -> Type) :+: C1 ('MetaCons "BAM_V1_6_Read_Error_GZipHeader_Total_Block_SIZE_Minus_1_Incorrect_Format" 'PrefixI 'False) (U1 :: Type -> Type)) :+: (C1 ('MetaCons "BAM_V1_6_Read_Error_GZipHeader_Compressed_DATA_Incorrect_Format" 'PrefixI 'False) (U1 :: Type -> Type) :+: C1 ('MetaCons "BAM_V1_6_Read_Error_File_Level_Metadata_Tag_Incorrect_Format" 'PrefixI 'False) (U1 :: Type -> Type))))) :+: (((C1 ('MetaCons "BAM_V1_6_Read_Error_File_Level_Metadata_Format_Version_Tag_Missing" 'PrefixI 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"BAM_V1_6_Read_Error_Reference_Sequence_Dictionary_MD5_Checksum_Incorrect_Format" 'PrefixI 'False) (U1 :: Type -> Type) :+: (C1 ('MetaCons "BAM_V1_6_Read_Error_Reference_Sequence_Dictionary_Species_Incorrect_Format" 'PrefixI 'False) (U1 :: Type -> Type) :+: C1 ('MetaCons "BAM_V1_6_Read_Error_Reference_Sequence_Dictionary_Molecule_Topology_Incorrect_Format" 'PrefixI 'False) (U1 :: Type -> Type))) :+: ((C1 ('MetaCons "BAM_V1_6_Read_Error_Reference_Sequence_Dictionary_Molecule_Topology_Invalid_Value" 'PrefixI 'False) (U1 :: Type -> Type) :+: C1 ('MetaCons "BAM_V1_6_Read_Error_Reference_Sequence_Dictionary_URI_Incorrect_Format" 'PrefixI 'False) (U1 :: Type -> Type)) :+: (C1 ('MetaCons "BAM_V1_6_Read_Error_Read_Group_Read_Group_Identifier_Incorrect_Format" 'PrefixI 'False) (U1 :: Type -> Type) :+: C1 ('MetaCons "BAM_V1_6_Read_Error_Read_Group_Read_Group_Identifier_Tag_Missing" 'PrefixI 'False) (U1 :: Type -> Type))))) :+: (((C1 ('MetaCons "BAM_V1_6_Read_Error_Read_Group_Barcode_Sequence_Incorrect_Format" 'PrefixI 'False) (U1 :: Type -> Type) :+: (C1 ('MetaCons "BAM_V1_6_Read_Error_Read_Group_Sequencing_Center_Incorrect_Format" 'PrefixI 'False) (U1 :: Type -> Type) :+: C1 ('MetaCons "BAM_V1_6_Read_Error_Read_Group_Description_Incorrect_Format" 'PrefixI 'False) (U1 :: Type -> Type))) :+: ((C1 ('MetaCons "BAM_V1_6_Read_Error_Read_Group_Date_Run_Produced_Incorrect_Format" 'PrefixI 'False) (U1 :: Type -> Type) :+: C1 ('MetaCons "BAM_V1_6_Read_Error_Read_Group_Flow_Order_Incorrect_Format" 'PrefixI 'False) (U1 :: Type -> Type)) :+: (C1 ('MetaCons "BAM_V1_6_Read_Error_Read_Group_Key_Sequence_Incorrect_Format" 'PrefixI 'False) (U1 :: Type -> Type) :+: C1 ('MetaCons "BAM_V1_6_Read_Error_Read_Group_Library_Incorrect_Format" 'PrefixI 'False) (U1 :: Type -> Type)))) :+: ((C1 ('MetaCons "BAM_V1_6_Read_Error_Read_Group_Programs_Incorrect_Format" 'PrefixI 'False) (U1 :: Type -> Type) :+: (C1 ('MetaCons 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"BAM_V1_6_Read_Error_Program_Command_Line_Incorrect_Format" 'PrefixI 'False) (U1 :: Type -> Type))) :+: ((C1 ('MetaCons "BAM_V1_6_Read_Error_Program_Previous_PG_ID_Incorrect_Format" 'PrefixI 'False) (U1 :: Type -> Type) :+: C1 ('MetaCons "BAM_V1_6_Read_Error_Program_Description_Incorrect_Format" 'PrefixI 'False) (U1 :: Type -> Type)) :+: (C1 ('MetaCons "BAM_V1_6_Read_Error_Program_Version_Incorrect_Format" 'PrefixI 'False) (U1 :: Type -> Type) :+: C1 ('MetaCons "BAM_V1_6_Read_Error_Program_Tag_Incorrect_Format" 'PrefixI 'False) (U1 :: Type -> Type)))) :+: ((C1 ('MetaCons "BAM_V1_6_Read_Error_One_Line_Comment_Tag_Incorrect_Format" 'PrefixI 'False) (U1 :: Type -> Type) :+: (C1 ('MetaCons "BAM_V1_6_Read_Error_Alignment_QNAME_Incorrect_Format" 'PrefixI 'False) (U1 :: Type -> Type) :+: C1 ('MetaCons "BAM_V1_6_Read_Error_Alignment_FLAG_Incorrect_Format" 'PrefixI 'False) (U1 :: Type -> Type))) :+: ((C1 ('MetaCons "BAM_V1_6_Read_Error_Alignment_RNAME_Incorrect_Format" 'PrefixI 'False) (U1 :: 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