From ee99f8d2dd0631b20ff78026f716c6c8a40411ae Mon Sep 17 00:00:00 2001
From: Daniel Grittner <danielgrittner@web.de>
Date: Tue, 25 Jul 2023 22:35:14 +0200
Subject: [PATCH] fix: seralization for insertion_index and insertion_column

---
 .../silo/storage/column/insertion_column.h    |  4 +++-
 include/silo/storage/column/insertion_index.h | 21 +++++++++++++++++++
 2 files changed, 24 insertions(+), 1 deletion(-)

diff --git a/include/silo/storage/column/insertion_column.h b/include/silo/storage/column/insertion_column.h
index 4b40a2a9e..5a7d4d8fc 100644
--- a/include/silo/storage/column/insertion_column.h
+++ b/include/silo/storage/column/insertion_column.h
@@ -28,7 +28,8 @@ class InsertionColumnPartition {
    template <class Archive>
    [[maybe_unused]] void serialize(Archive& archive, const uint32_t /* version */) {
       // clang-format off
-      archive& values;
+      archive & values;
+      archive & insertion_index;
       // clang-format on
    }
 
@@ -60,6 +61,7 @@ class InsertionColumn {
    template <class Archive>
    [[maybe_unused]] void serialize(Archive& archive, const uint32_t /* version */) {
       // clang-format off
+      archive & *lookup;
       // clang-format on
    }
 
diff --git a/include/silo/storage/column/insertion_index.h b/include/silo/storage/column/insertion_index.h
index b33b01601..0e4ccd111 100644
--- a/include/silo/storage/column/insertion_index.h
+++ b/include/silo/storage/column/insertion_index.h
@@ -34,10 +34,21 @@ class InsertionIndex {
    [[maybe_unused]] void serialize(Archive& archive, const uint32_t /* version */) {
       // clang-format off
       archive & insertion_positions;
+      archive & collected_insertions;
       // clang-format on
    }
 
    struct Insertion {
+      friend class boost::serialization::access;
+
+      template <class Archive>
+      [[maybe_unused]] void serialize(Archive& archive, const uint32_t /* version */) {
+         // clang-format off
+         archive & value;
+         archive & sequence_ids;
+         // clang-format on
+      }
+
       std::string value;
       sequence_ids_t sequence_ids;
    };
@@ -47,6 +58,16 @@ class InsertionIndex {
    using three_mer_index_t = silo::NucleotideSymbolMap<two_mer_index_t>;
 
    struct InsertionPosition {
+      friend class boost::serialization::access;
+
+      template <class Archive>
+      [[maybe_unused]] void serialize(Archive& archive, const uint32_t /* version */) {
+         // clang-format off
+         archive & insertions;
+         archive & three_mer_index;
+         // clang-format on
+      }
+
       std::vector<Insertion> insertions;
       three_mer_index_t three_mer_index;