Indicate low quality tile variants with -1 in numpy array.

[lightning.git] / pca.go

diff --git a/pca.go b/pca.go
index 1120a3b68fbcf9935404fb026ef90bacc3aeb780..80b257bfd73382347eaf8b06b1fdbbad3faa4e20 100644 (file)
--- a/pca.go
+++ b/pca.go
@@ -153,7 +153,7 @@ func (cmd *goPCA) RunCommand(prog string, args []string, stdin io.Reader, stdout
        }
 
        log.Print("converting cgs to array")
-       data, rows, cols := cgs2array(tilelib.compactGenomes)
+       data, rows, cols := cgs2array(&tilelib)
        if *onehot {
                log.Printf("recode one-hot: %d rows, %d cols", rows, cols)
                data, _, cols = recodeOnehot(data, cols)
@@ -211,7 +211,7 @@ func (cmd *goPCA) RunCommand(prog string, args []string, stdin io.Reader, stdout
        return 0
 }
 
-func array2matrix(rows, cols int, data []uint16) mat.Matrix {
+func array2matrix(rows, cols int, data []int16) mat.Matrix {
        floatdata := make([]float64, rows*cols)
        for i, v := range data {
                floatdata[i] = float64(v)