update rust.yml with min_coverage_depth

jeffersonfparil · Jul 1, 2024 · 3b43690 · 3b43690
1 parent df94c0d
commit 3b43690
Showing 1 changed file with 7 additions and 7 deletions.
diff --git a/.github/workflows/rust.yml b/.github/workflows/rust.yml
@@ -24,18 +24,18 @@ jobs:
               run: | 
                 cargo run -- pileup2sync -f ./tests/test.pileup -p ./tests/test.csv
                 cargo run -- pileup2sync -f ./tests/test.pileup -p ./tests/test.csv --n-threads 2 --max-base-error-rate 0.0001
-                cargo run -- pileup2sync -f ./tests/test.pileup -p ./tests/test.csv --n-threads 2 --max-base-error-rate 0.0001 --min-coverage 10
-                cargo run -- pileup2sync -f ./tests/test.pileup -p ./tests/test.csv --n-threads 2 --max-base-error-rate 0.0001 --min-coverage 10 --min-allele-frequency 0.01
+                cargo run -- pileup2sync -f ./tests/test.pileup -p ./tests/test.csv --n-threads 2 --max-base-error-rate 0.0001 --min-coverage-depth 10
+                cargo run -- pileup2sync -f ./tests/test.pileup -p ./tests/test.csv --n-threads 2 --max-base-error-rate 0.0001 --min-coverage-depth 10 --min-allele-frequency 0.01
                 cargo run -- fisher_exact_test -f ./tests/test.sync -p ./tests/test.csv --n-threads 2
-                cargo run -- fisher_exact_test -f ./tests/test.sync -p ./tests/test.csv --n-threads 2 --min-coverage 10 --min-allele-frequency 0.01
+                cargo run -- fisher_exact_test -f ./tests/test.sync -p ./tests/test.csv --n-threads 2 --min-coverage-depth 10 --min-allele-frequency 0.01
                 cargo run -- chisq_test -f ./tests/test.sync -p ./tests/test.csv --n-threads 2
-                cargo run -- chisq_test -f ./tests/test.sync -p ./tests/test.csv --n-threads 2 --min-coverage 10 --min-allele-frequency 0.01
+                cargo run -- chisq_test -f ./tests/test.sync -p ./tests/test.csv --n-threads 2 --min-coverage-depth 10 --min-allele-frequency 0.01
                 cargo run -- pearson_corr -f ./tests/test.sync -p ./tests/test.csv --phen-delim , --phen-name-col 0 --phen-value-col 2,3  --n-threads 2
-                cargo run -- pearson_corr -f ./tests/test.sync -p ./tests/test.csv --phen-delim , --phen-name-col 0 --phen-value-col 2,3  --n-threads 2 --min-coverage 10 --min-allele-frequency 0.01
+                cargo run -- pearson_corr -f ./tests/test.sync -p ./tests/test.csv --phen-delim , --phen-name-col 0 --phen-value-col 2,3  --n-threads 2 --min-coverage-depth 10 --min-allele-frequency 0.01
                 cargo run -- ols_iter -f ./tests/test.sync -p ./tests/test.csv --phen-delim , --phen-name-col 0 --phen-value-col 2,3  --n-threads 2
-                cargo run -- ols_iter -f ./tests/test.sync -p ./tests/test.csv --phen-delim , --phen-name-col 0 --phen-value-col 2,3  --n-threads 2 --min-coverage 10 --min-allele-frequency 0.01
+                cargo run -- ols_iter -f ./tests/test.sync -p ./tests/test.csv --phen-delim , --phen-name-col 0 --phen-value-col 2,3  --n-threads 2 --min-coverage-depth 10 --min-allele-frequency 0.01
                 cargo run -- mle_iter -f ./tests/test.sync -p ./tests/test.csv --phen-delim , --phen-name-col 0 --phen-value-col 2,3  --n-threads 2
-                cargo run -- mle_iter -f ./tests/test.sync -p ./tests/test.csv --phen-delim , --phen-name-col 0 --phen-value-col 2,3  --n-threads 2 --min-coverage 10 --min-allele-frequency 0.01
+                cargo run -- mle_iter -f ./tests/test.sync -p ./tests/test.csv --phen-delim , --phen-name-col 0 --phen-value-col 2,3  --n-threads 2 --min-coverage-depth 10 --min-allele-frequency 0.01
                 cargo run -- gwalpha  -f ./tests/test.sync -p ./tests/test.py --n-threads 2 --gwalpha-method LS
                 cargo run -- gwalpha  -f ./tests/test.sync -p ./tests/test.py --n-threads 2 --gwalpha-method ML
                 cargo run -- sync2csv -f ./tests/test.sync -p ./tests/test.csv --phen-delim , --phen-name-col 0 --phen-value-col 2,3  --n-threads 2