Hi! While rebuilding the python related packages against the Python 3.15rc2 we stumbled upon spades FTBFS, that was blocking some other packages from being rebuild.
To fix this we backported an upstream commit [1] with the fitting commit message "Try to unbreak". And create the non-maintainer upload with it. Please consider applying this patch in your next upload, or even better, update the upstream releas. Happy hacking, [1]: https://github.com/ablab/spades/commit/26067c33cda386b61dba0455985a9d0bc7c263f3 -- "Can you imagine what I would do if I could do all I can?" -- Sun Tzu Saludos /\/\ /\ >< `/
diff --git a/debian/changelog b/debian/changelog index 9df38d75c..f895cfe02 100644 --- a/debian/changelog +++ b/debian/changelog @@ -1,3 +1,10 @@ +spades (4.0.0+really3.15.5+dfsg-3.1) unstable; urgency=medium + + * Non-maintainer upload. + * Add upstream patch Try_to_unbreak.patch (Closes: #1143706) + + -- Maximiliano Curia <[email protected]> Tue, 22 Sep 2026 14:37:02 +0200 + spades (4.0.0+really3.15.5+dfsg-3) unstable; urgency=medium * Fix build with CMake 4 diff --git a/debian/patches/Try_to_unbreak.patch b/debian/patches/Try_to_unbreak.patch new file mode 100644 index 000000000..d7789d442 --- /dev/null +++ b/debian/patches/Try_to_unbreak.patch @@ -0,0 +1,58 @@ +Description: Try to unbreak +Origin: upstream, https://github.com/ablab/spades/commit/26067c33cda386b61dba0455985a9d0bc7c263f3 +Author: Anton Korobeynikov <[email protected]> +Date: Tue, 16 Nov 2021 00:28:59 +0300 + +Index: spades/assembler/ext/include/bamtools/api/algorithms/Sort.h +=================================================================== +--- spades.orig/assembler/ext/include/bamtools/api/algorithms/Sort.h ++++ spades/assembler/ext/include/bamtools/api/algorithms/Sort.h +@@ -76,7 +76,7 @@ struct API_EXPORT Sort { + { } + + // comparison function +- bool operator()(const BamTools::BamAlignment& lhs, const BamTools::BamAlignment& rhs) { ++ bool operator()(const BamTools::BamAlignment& lhs, const BamTools::BamAlignment& rhs) const { + return sort_helper(m_order, lhs.Name, rhs.Name); + } + +@@ -112,7 +112,7 @@ struct API_EXPORT Sort { + { } + + // comparison function +- bool operator()(const BamTools::BamAlignment& lhs, const BamTools::BamAlignment& rhs) { ++ bool operator()(const BamTools::BamAlignment& lhs, const BamTools::BamAlignment& rhs) const { + + // force unmapped aligmnents to end + if ( lhs.RefID == -1 ) return false; +@@ -161,7 +161,7 @@ struct API_EXPORT Sort { + { } + + // comparison function +- bool operator()(const BamTools::BamAlignment& lhs, const BamTools::BamAlignment& rhs) { ++ bool operator()(const BamTools::BamAlignment& lhs, const BamTools::BamAlignment& rhs) const { + + // force alignments without tag to end + T lhsTagValue; +@@ -196,7 +196,7 @@ struct API_EXPORT Sort { + struct Unsorted : public AlignmentSortBase { + + // comparison function +- inline bool operator()(const BamTools::BamAlignment&, const BamTools::BamAlignment&) { ++ inline bool operator()(const BamTools::BamAlignment&, const BamTools::BamAlignment&) const { + return false; // returning false tends to retain insertion order + } + +Index: spades/assembler/ext/src/bamtools/api/internal/bam/BamMultiMerger_p.h +=================================================================== +--- spades.orig/assembler/ext/src/bamtools/api/internal/bam/BamMultiMerger_p.h ++++ spades/assembler/ext/src/bamtools/api/internal/bam/BamMultiMerger_p.h +@@ -61,7 +61,7 @@ struct MergeItemSorter : public std::bin + : m_comp(comp) + { } + +- bool operator()(const MergeItem& lhs, const MergeItem& rhs) { ++ bool operator()(const MergeItem& lhs, const MergeItem& rhs) const { + const BamAlignment& l = *lhs.Alignment; + const BamAlignment& r = *rhs.Alignment; + return m_comp(l,r); diff --git a/debian/patches/series b/debian/patches/series index 094e24f6a..e0cddfe0b 100644 --- a/debian/patches/series +++ b/debian/patches/series @@ -24,3 +24,4 @@ typos.patch python3.12.patch raw_regex_pattern.patch gcc-15.patch +Try_to_unbreak.patch
