Merge pull request #148 from hasindu2008/degrade_profiles

promr9dna4kh_rad004 degrade profile (2 bit) added

Author: hiruna72

src/degrade.h

@@ -28,6 +28,7 @@
 #define SEQUENCING_KIT_ULK114 ("sqk-ulk114")
 #define SEQUENCING_KIT_LSK110 ("sqk-lsk110")
 #define SEQUENCING_KIT_LSK112 ("sqk-lsk112")
+#define SEQUENCING_KIT_RAD004 ("sqk-rad004")
 #define SLOW5_HEADER_DEVICE_TYPE ("device_type")
 #define SLOW5_HEADER_EXPERIMENT_TYPE ("experiment_type")
 #define SLOW5_HEADER_SAMPLE_FREQUENCY ("sample_frequency")
@@ -115,6 +116,12 @@
         SAMPLE_FREQUENCY_4KHZ,\
         SAMPLING_RATE_4KHZ,\
         3),\
+    DATASET_PROMETHION("DNA rad004 4kHz",\
+        SEQUENCING_KIT_RAD004,\
+        DNA_EXPERIMENT_TYPE,\
+        SAMPLE_FREQUENCY_4KHZ,\
+        SAMPLING_RATE_4KHZ,\
+        2),\
 }
 
 struct dataset {

test/data/exp/degrade/promr9dna4khz_rad004_auto.blow5

@@ -176,6 +176,12 @@ if [ -z "$bigend" ]; then
     $SLOW5TOOLS degrade "$RAW_DIR/promr10dna4khz_lsk112.blow5" -o "$OUT_DIR/promr10dna4khz_lsk112_auto.blow5" || die "$name: slow5tools failed"
     diff "$OUT_DIR/promr10dna4khz_lsk112_auto.blow5" "$EXP_DIR/promr10dna4khz_lsk112_auto.blow5" > /dev/null || die "$name: diff failed"
     info "$name"
+
+    i=$((i + 1))
+    name="testcase $i: promethion rad004 4khz"
+    $SLOW5TOOLS degrade "$RAW_DIR/promr9dna4khz_rad004.blow5" -o "$OUT_DIR/promr9dna4khz_rad004_auto.blow5" || die "$name: slow5tools failed"
+    diff "$OUT_DIR/promr9dna4khz_rad004_auto.blow5" "$EXP_DIR/promr9dna4khz_rad004_auto.blow5" > /dev/null || die "$name: diff failed"
+    info "$name"
 fi
 
 exit 0