From 7cea57e53a3387360d0215d02d76e15a978976105332e123e848ce7b87c9bb43 Mon Sep 17 00:00:00 2001 From: Dirk Mueller Date: Thu, 10 Oct 2024 15:36:57 +0000 Subject: [PATCH] - update to 1.84: * The old parser stores information in a Bio.Blast.NCBIXML.Blast object, with attribute names based on plain-text Blast output. The new parser stores information in a Bio.Blast.Record object. This class follows the DTD that describes the XML in terms of attribute names and dictionary key names, class structure, and object types. This makes it easier to find the detailed description of each field in the NCBI Blast documentation. * The old parser stores alignment information directly as seen in the BLAST XML output, i.e. as strings with dashes to represent gaps. The new parser stores the alignment information as a Bio.Align.Alignment object, which can then be used to e.g. print the alignment in a different format. OBS-URL: https://build.opensuse.org/package/show/devel:languages:python:numeric/python-biopython?expand=0&rev=25 --- biopython-1.83.tar.gz | 3 --- biopython-1.84.tar.gz | 3 +++ python-biopython.changes | 18 ++++++++++++++++++ python-biopython.spec | 2 +- 4 files changed, 22 insertions(+), 4 deletions(-) delete mode 100644 biopython-1.83.tar.gz create mode 100644 biopython-1.84.tar.gz diff --git a/biopython-1.83.tar.gz b/biopython-1.83.tar.gz deleted file mode 100644 index 636d1f5..0000000 --- a/biopython-1.83.tar.gz +++ /dev/null @@ -1,3 +0,0 @@ -version https://git-lfs.github.com/spec/v1 -oid sha256:78e6bfb78de63034037afd35fe77cb6e0a9e5b62706becf78a7d922b16ed83f7 -size 19431530 diff --git a/biopython-1.84.tar.gz b/biopython-1.84.tar.gz new file mode 100644 index 0000000..c4ee00f --- /dev/null +++ b/biopython-1.84.tar.gz @@ -0,0 +1,3 @@ +version https://git-lfs.github.com/spec/v1 +oid sha256:60fbe6f996e8a6866a42698c17e552127d99a9aab3259d6249fbaabd0e0cc7b4 +size 25793001 diff --git a/python-biopython.changes b/python-biopython.changes index 2e5a1a1..bf1764c 100644 --- a/python-biopython.changes +++ b/python-biopython.changes @@ -1,3 +1,21 @@ +------------------------------------------------------------------- +Thu Oct 10 15:36:36 UTC 2024 - Dirk Müller + +- update to 1.84: + * The old parser stores information in a + Bio.Blast.NCBIXML.Blast object, with attribute names based on + plain-text Blast output. The new parser stores information in + a Bio.Blast.Record object. This class follows the DTD that + describes the XML in terms of attribute names and dictionary + key names, class structure, and object types. This makes it + easier to find the detailed description of each field in the + NCBI Blast documentation. + * The old parser stores alignment information directly as seen + in the BLAST XML output, i.e. as strings with dashes to + represent gaps. The new parser stores the alignment + information as a Bio.Align.Alignment object, which can then + be used to e.g. print the alignment in a different format. + ------------------------------------------------------------------- Sat Jan 20 12:29:01 UTC 2024 - Dirk Müller diff --git a/python-biopython.spec b/python-biopython.spec index f42b854..5d72903 100644 --- a/python-biopython.spec +++ b/python-biopython.spec @@ -22,7 +22,7 @@ %define skip_python2 1 %define skip_python36 1 Name: python-biopython -Version: 1.83 +Version: 1.84 Release: 0 Summary: Python Tools for Computational Molecular Biology License: BSD-3-Clause AND MIT