import fails with error 'intron_variant'

[stolpeo]

Describe the bug
Some case imports fail with the error message intron_variant in the post import step when computing the variant stats after the seqvar import.

[stolpeo]

RCA

>>> gather_variant_stats(s)
Traceback (most recent call last):
  File "/opt/pyenv/versions/3.10.15/lib/python3.10/code.py", line 90, in runcode
    exec(code, self.locals)
  File "<console>", line 1, in <module>
  File "/usr/src/app/variants/variant_stats.py", line 79, in gather_variant_stats
    effect_counts[sample][effect] += small_var.genotype[sample]["gt"].count("1")
KeyError: 'intron_variant'

This is the elaborated error message. The effect intron_variant is known by the sequence ontology and partly by varfish, however the stat computation does not know this variant (yet)

From variant/forms.py:

FILTER_FORM_TRANSLATE_EFFECTS = {
    "effect_coding_transcript_intron_variant": "coding_transcript_intron_variant",
    "effect_complex_substitution": "complex_substitution",
    "effect_direct_tandem_duplication": "direct_tandem_duplication",
    "effect_disruptive_inframe_deletion": "disruptive_inframe_deletion",
    "effect_disruptive_inframe_insertion": "disruptive_inframe_insertion",
    "effect_downstream_gene_variant": "downstream_gene_variant",
    "effect_exon_loss_variant": "exon_loss_variant",
    "effect_feature_truncation": "feature_truncation",
    "effect_5_prime_UTR_exon_variant": "5_prime_UTR_exon_variant",
    "effect_5_prime_UTR_intron_variant": "5_prime_UTR_intron_variant",
    "effect_frameshift_elongation": "frameshift_elongation",
    "effect_frameshift_truncation": "frameshift_truncation",
    "effect_frameshift_variant": "frameshift_variant",
    "effect_inframe_deletion": "inframe_deletion",
    "effect_inframe_insertion": "inframe_insertion",
    "effect_intergenic_variant": "intergenic_variant",
    "effect_internal_feature_elongation": "internal_feature_elongation",
    "effect_missense_variant": "missense_variant",
    "effect_mnv": "mnv",
    "effect_non_coding_transcript_exon_variant": "non_coding_transcript_exon_variant",
    "effect_non_coding_transcript_intron_variant": "non_coding_transcript_intron_variant",
    "effect_splice_acceptor_variant": "splice_acceptor_variant",
    "effect_splice_donor_variant": "splice_donor_variant",
    "effect_splice_region_variant": "splice_region_variant",
    "effect_start_lost": "start_lost",
    "effect_stop_gained": "stop_gained",
    "effect_stop_lost": "stop_lost",
    "effect_stop_retained_variant": "stop_retained_variant",
    "effect_structural_variant": "structural_variant",
    "effect_synonymous_variant": "synonymous_variant",
    "effect_3_prime_UTR_exon_variant": "3_prime_UTR_exon_variant",
    "effect_3_prime_UTR_intron_variant": "3_prime_UTR_intron_variant",
    "effect_transcript_ablation": "transcript_ablation",
    "effect_upstream_gene_variant": "upstream_gene_variant",
}