fastmultigather against rocksdb gives "No such file or directory (os error 2)"

[AnneliektH]

Trying to run fastmultigather against a rocksdb in
/group/ctbrowngrp2/scratch/annie/2023-swine-sra/sourmash/viral_taxonomy/genbank/sc100rocksdb

When running against .zip db, command works and I get results.
rocksdb is present, so is the file with paths to the sig.zip.

For rocksdb:

input:
sourmash scripts fastmultigather \
../../votu_sigs_s100.txt \
 /home/ntpierce/2023-spillover/output.genbank-viral/genbank.2023-05.viral.dna-k21-sc100.rocksdb \
-c 5 -k 21 -t 100 -s 100

output:
== This is sourmash version 4.8.6. ==
== Please cite Brown and Irber (2016), doi:10.21105/joss.00027. ==

=> sourmash_plugin_branchwater 0.9.1; cite Irber et al., doi: 10.1101/2022.11.02.514947

ksize: 21 / scaled: 100 / moltype: DNA / threshold bp: 100.0
gathering all sketches in '../../votu_sigs_s100.txt' against '/home/ntpierce/2023-spillover/output.genbank-viral/genbank.2023-05.viral.dna-k21-sc100.rocksdb' using 5 threads
Error: No such file or directory (os error 2)

[bluegenes]

Could you try running this from within the same directory as your rocksdb database (so you don't need to pass in a full path)? I'm curious if this is related to #206

[ctb]

it should also be possible to symlink (ln -s) the rocksdb into your current directory -

ln -s /home/ntpierce/2023-spillover/output.genbank-viral/genbank.2023-05.viral.dna-k21-sc100.rocksdb .

and then use the path genbank.2023-05.viral.dna-k21-sc100.rocksdb directly.

[AnneliektH]

Both those options work!