From ff9c28951276befdbf69b113a25c57dd5a983e86 Mon Sep 17 00:00:00 2001
From: LTLA <infinite.monkeys.with.keyboards@gmail.com>
Date: Sun, 23 Jul 2023 10:51:48 -0700
Subject: [PATCH 1/2] Updated to the latest bakana (itself using the latest
 scran.js).

---
 package.json                |  4 ++--
 src/workers/scran.worker.js | 28 ----------------------------
 2 files changed, 2 insertions(+), 30 deletions(-)

diff --git a/package.json b/package.json
index c114a3c0..072ff5ec 100644
--- a/package.json
+++ b/package.json
@@ -33,8 +33,8 @@
     "@testing-library/jest-dom": "^5.16.5",
     "@testing-library/react": "^13.4.0",
     "@testing-library/user-event": "^13.5.0",
-    "bakana-remotes": "^1.0.3",
-    "bakana": "^2.0.22",
+    "bakana-remotes": "^2.0.0-alpha.1",
+    "bakana": "^3.0.0-alpha.2",
     "bioconductor": "^0.3.1",
     "d3": "^7.8.2",
     "epiviz.gl": "1.0.4",
diff --git a/src/workers/scran.worker.js b/src/workers/scran.worker.js
index cf8dbb8a..c083df0c 100644
--- a/src/workers/scran.worker.js
+++ b/src/workers/scran.worker.js
@@ -184,34 +184,6 @@ function linkKanaDb(collected) {
 
 bakana.setResolveLink(kana_db.loadFile);
 
-async function unserializeAllSteps(contents) {
-  const h5path = "serialized_out.h5";
-
-  let output;
-  try {
-    let loader = await bakana.parseKanaFile(contents, h5path);
-    let loaded_state = await bakana.loadAnalysis(h5path, loader, {
-      finishFun: postSuccess,
-    });
-
-    if (superstate !== null) {
-      await bakana.freeAnalysis(superstate);
-    }
-    superstate = loaded_state;
-
-    output = {
-      parameters: translate.toUI(bakana.retrieveParameters(superstate)),
-      other: {
-        custom_selections: superstate.custom_selections.fetchSelections(),
-      },
-    };
-  } finally {
-    bakana.callScran((scran) => scran.removeFile(h5path));
-  }
-
-  return output;
-}
-
 async function postStepSummary(step) {
   try {
     let output = await fetchStepSummary(superstate, step);

From 1a2b1083e0d05dbfa556db982caafbddb57e09f4 Mon Sep 17 00:00:00 2001
From: LTLA <infinite.monkeys.with.keyboards@gmail.com>
Date: Tue, 25 Jul 2023 10:32:21 -0700
Subject: [PATCH 2/2] Bumped versions out of alpha.

---
 package.json | 4 ++--
 1 file changed, 2 insertions(+), 2 deletions(-)

diff --git a/package.json b/package.json
index 072ff5ec..11843593 100644
--- a/package.json
+++ b/package.json
@@ -33,8 +33,8 @@
     "@testing-library/jest-dom": "^5.16.5",
     "@testing-library/react": "^13.4.0",
     "@testing-library/user-event": "^13.5.0",
-    "bakana-remotes": "^2.0.0-alpha.1",
-    "bakana": "^3.0.0-alpha.2",
+    "bakana-remotes": "^2.0.0",
+    "bakana": "^3.0.0",
     "bioconductor": "^0.3.1",
     "d3": "^7.8.2",
     "epiviz.gl": "1.0.4",