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Move trim_rmdup_subsamp_reads to viral-core read_utils

This function now lives in viral-core (PR #161). Remove the local
implementation and tests, update assemble_spades to call
read_utils.trim_rmdup_subsamp_reads instead.

Co-Authored-By: Claude Opus 4.5 <noreply@anthropic.com>

226 of 366 branches covered (61.75%)

Branch coverage included in aggregate %.

1337 of 1938 relevant lines covered (68.99%)

0.69 hits per line