Merge remote-tracking branch 'refs/remotes/origin/master'

submit_01b_array.sh

 #!/bin/bash
 
 #$ -S /bin/bash
-#$ -N HIDDENcov-nona
+#$ -N HIDDENpa-nona2
 
 #$ -o /work/$USER/$JOB_NAME-$JOB_ID-$TASK_ID.log
 #$ -j y
@@ -19,20 +19,20 @@ module load GCC/8.3.0
 module load OpenMPI/3.1.4
 module load R/3.6.2
 
-output=/data/splot/HIDDEN/output/HIDDENcov.nona
+output=/data/splot/HIDDEN/output/HIDDENpa-nona2
 
 Rscript \
     cli_01b.r \
-    --max.inter.t 1 \
-    --chunk.i $SGE_TASK_ID \
-    --chunkn 53 \
-    --nperm 99 \
-    --ncores ${NSLOTS:-1} \
+    --max.inter.t 11 \
+    --chunk.i "$SGE_TASK_ID" \
+    --chunkn 336 \
+    --nperm 999 \
+    --ncores "${NSLOTS:-1}" \
     --start.round 1 \
-    --relax.round 1 \
-    --exclude.na T \
-    /data/splot/HIDDEN/species.v2.10perc.cov.txt \
-    /data/splot/HIDDEN/traits.v2.10perc.txt \
+    --relax.round 8 \
+    --exclude.na F \
+    /data/splot/HIDDEN/species.v2.10perc.pa.txt \
+    /data/splot/HIDDEN/traits.v2.10perc.pa.sign.txt \
     "$output" \
     "get.corXY.bootstrap" \
     "all" \