Steffen Möller pushed to branch upstream at Debian Med / nanopolish
Commits: 55e72c8d by Steffen Moeller at 2020-05-03T19:25:12+02:00 New upstream version 0.13.2 - - - - - 4 changed files: - README.md - src/common/nanopolish_common.h - src/io/nanopolish_fast5_loader.cpp - src/nanopolish_squiggle_read.cpp Changes: ===================================== README.md ===================================== @@ -6,6 +6,8 @@ Software package for signal-level analysis of Oxford Nanopore sequencing data. N ## Release notes +* 0.13.2: fix memory leak when loading signal data + * 0.13.1: fix `nanopolish index` performance issue for some barcoding runs * 0.13.0: modify HMM transitions to allow the balance between insertions and deletions to be changed depending on mode (consensus vs reference variants) ===================================== src/common/nanopolish_common.h ===================================== @@ -18,7 +18,7 @@ #include "logsum.h" #define PACKAGE_NAME "nanopolish" -#define PACKAGE_VERSION "0.13.1" +#define PACKAGE_VERSION "0.13.2" #define PACKAGE_BUGREPORT "https://github.com/jts/nanopolish/issues"; // ===================================== src/io/nanopolish_fast5_loader.cpp ===================================== @@ -24,6 +24,9 @@ Fast5Loader::~Fast5Loader() Fast5Data Fast5Loader::load_read(const std::string& filename, const std::string& read_name) { Fast5Data data; + data.rt.n = 0; + data.rt.raw = NULL; + fast5_file f5_file = fast5_open(filename); if(!fast5_is_open(f5_file)) { data.is_valid = false; ===================================== src/nanopolish_squiggle_read.cpp ===================================== @@ -88,6 +88,8 @@ SquiggleRead::SquiggleRead(const std::string& name, const ReadDB& read_db, const if(!this->events[0].empty()) { assert(this->base_model[0] != NULL); } + free(data.rt.raw); + data.rt.raw = NULL; } SquiggleRead::SquiggleRead(const ReadDB& read_db, const Fast5Data& data, const uint32_t flags) View it on GitLab: https://salsa.debian.org/med-team/nanopolish/-/commit/55e72c8dd14f1ea3aaab30db00cf33667602945d -- View it on GitLab: https://salsa.debian.org/med-team/nanopolish/-/commit/55e72c8dd14f1ea3aaab30db00cf33667602945d You're receiving this email because of your account on salsa.debian.org.
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