From 64daf5a4dd74e1633ba422e82af59fd321394c87 Mon Sep 17 00:00:00 2001
From: jrobinso <933148+jrobinso@users.noreply.github.com>
Date: Wed, 4 Sep 2024 09:19:25 -0700
Subject: [PATCH] Fix unit tests (remove igv.org.genomes dependency)

---
 test/testBigbed.js |  4 ++--
 test/testTabix.js  | 24 ------------------------
 2 files changed, 2 insertions(+), 26 deletions(-)

diff --git a/test/testBigbed.js b/test/testBigbed.js
index af2834991..594ed1270 100644
--- a/test/testBigbed.js
+++ b/test/testBigbed.js
@@ -163,14 +163,14 @@ table chromatinInteract
 
         this.timeout(10000)
 
-        const url = "https://s3.amazonaws.com/igv.org.genomes/hg38/clinvarMain.bb",
+        const url = "https://hgdownload.soe.ucsc.edu/gbdb/hg38/bbi/clinvar/clinvarMain.bb",
             chr = "chr22",
             start = 23786974,
             end = 23787050
 
         const bwReader = new BWReader({url: url})
         const features = await bwReader.readFeatures(chr, start, chr, end)
-        assert.equal(features.length, 3)
+        assert.equal(features.length, 4)
 
     })
 
diff --git a/test/testTabix.js b/test/testTabix.js
index 5db8cc5ff..05eef47a6 100644
--- a/test/testTabix.js
+++ b/test/testTabix.js
@@ -65,30 +65,6 @@ suite("testTabix", function () {
         }
     })
 
-    test("CSI query - gff", async function () {
-
-        this.timeout(200000)
-
-        const chr = "10",
-            beg = 400000,
-            end = 500000
-
-        const reader = new FeatureFileReader({
-            format: "gff3",
-            url: "https://s3.amazonaws.com/igv.org.genomes/hg38/Homo_sapiens.GRCh38.94.chr.gff3.gz",
-            indexURL: "https://s3.amazonaws.com/igv.org.genomes/hg38/Homo_sapiens.GRCh38.94.chr.gff3.gz.csi"
-        })
-        await reader.readHeader()
-        const features = await reader.readFeatures(chr, beg, end)
-        assert.ok(features)
-
-        const len = features.length
-        assert.ok(len > 0)
-        for (let i = 1; i < len - 1; i++) {
-            const f = features[i]
-            assert.equal(f.chr , chr)
-        }
-    })
 })