Salmon quant output is missing index_seq_hash variable #1071
Description
Description of the bug
The meta_info.json file for each sample quantified using salmon is missing the values for the index hashes required for tximeta import etc.
It is present in the info.json in the salmon index, but not in the metadata for each quant.sf file
Command used and terminal output
No response
Relevant files
{
"salmon_version": "1.10.1",
"samp_type": "none",
"opt_type": "vb",
"quant_errors": [],
"num_libraries": 1,
"library_types": [
"ISR"
],
"frag_dist_length": 1001,
"frag_length_mean": 131.06035147965313,
"frag_length_sd": 41.948120867161687,
"seq_bias_correct": false,
"gc_bias_correct": false,
"num_bias_bins": 4096,
"mapping_type": "alignment",
"num_valid_targets": 252798,
"num_decoy_targets": 0,
"num_eq_classes": 432137,
"serialized_eq_classes": false,
"eq_class_properties": [
"range_factorized",
"gzipped"
],
"length_classes": [
549,
773,
1399,
2648,
109224
],
"index_seq_hash": "",
"index_name_hash": "",
"index_seq_hash512": "",
"index_name_hash512": "",
"index_decoy_seq_hash": "",
"index_decoy_name_hash": "",
"num_bootstraps": 0,
"num_processed": 24186572,
"num_mapped": 24186572,
"num_decoy_fragments": 0,
"num_dovetail_fragments": 0,
"num_fragments_filtered_vm": 0,
"num_alignments_below_threshold_for_mapped_fragments_vm": 0,
"percent_mapped": 100.0,
"call": "quant",
"start_time": "Sun Aug 06 05:15:44 2023",
"end_time": "Sun Aug 06 05:34:38 2023"
}
System information
No response