added maturing build to github actions

.github/workflows/test.yml

@@ -51,6 +51,7 @@ jobs:
       - name: pip install
         run: |
           pip install .[actions]
+          maturin build --release
       - name: Test deepTools
         run: |
           pytest -v
@@ -72,6 +73,7 @@ jobs:
     - name: pip install
       run: |
         pip install .[actions]
+        maturin build --release
     - name: Test deepTools
       run: |
         pytest -v

pydeeptools/deeptools/test/test_data/r_bamcompare.bedgraph

@@ -0,0 +1,3 @@
+3R	0	500	0.834942
+3R	500	1000	1.10469
+3R	1000	1500	0.422782

pydeeptools/deeptools/test/test_data/r_bamcompare1.bedgraph

@@ -0,0 +1,6 @@
+chr2	0	5000000	1
+chr2	5000000	5000500	1.20408
+chr2	5000500	5001000	0.961332
+chr2	5001000	5001500	0.960754
+chr2	5001500	5002000	0.972789
+chr2	5002000	5010000	1

pydeeptools/deeptools/test/test_data/r_bamcompare2.bedgraph

@@ -0,0 +1,6 @@
+chr2	0	5000000	1
+chr2	5000000	5000500	1.2040817
+chr2	5000500	5001000	0.9613319
+chr2	5001000	5001500	0.9607535
+chr2	5001500	5002000	0.9727891
+chr2	5002000	5010000	1

pydeeptools/deeptools/test/test_data/testA.bedgraph

@@ -0,0 +1,3 @@
+3R	0	50	0
+3R	50	150	5000000
+3R	150	200	10000000

pydeeptools/deeptools/test/test_r_bamCompare.py

@@ -32,6 +32,45 @@ def test_r_bamcompare():
     regions = []
     verbose = False
 
+    # Call the Rust function
+    r_bamcompare(
+        bamifile1, bamifile2, ofile, ofiletype, norm, effective_genome_size, scalefactorsmethod, operation, 
+        pseudocount, ignoreduplicates, minmappingquality, samflaginclude, samflagexclude, minfraglen, maxfraglen, nproc, 
+        _ignorechr, binsize, regions, verbose
+    )
+    # Add assertions to verify the expected behavior
+    expected = ['3R\t0\t500\t0.6213592\n',
+            '3R\t500\t1000\t0.8252427\n',
+            '3R\t1000\t1500\t0.2\n',]
+    _foo = open(ofile, 'r')
+    resp = _foo.readlines()
+    _foo.close()
+    assert f"{resp}" == f"{expected}", f"{resp} != {expected}"
+    unlink(ofile)
+
+def test_r_bamcompare_RPKM():
+    bamifile1 = BAMFILE_A
+    bamifile2 = BAMFILE_B
+    ofile = ROOT + "r_bamcompare_output.bedgraph"
+    ofiletype  = "bedgraph"
+    norm  = "RPKM"
+    effective_genome_size = 0
+    scalefactorsmethod = "None"
+    operation = "ratio"
+    pseudocount = 0
+    # filtering options
+    ignoreduplicates = False
+    minmappingquality = 0
+    samflaginclude = 0
+    samflagexclude = 0
+    minfraglen = 0
+    maxfraglen = 0
+    nproc = 1
+    _ignorechr = []
+    binsize = 500
+    regions = []
+    verbose = False
+
     # Call the Rust function
     r_bamcompare(
         bamifile1, bamifile2, ofile, ofiletype, norm, effective_genome_size, scalefactorsmethod, operation,