Source: python-ete3 Version: 3.1.3+dfsg-2 Severity: normal User: debian-pyt...@lists.debian.org Usertags: python3.13
This package failed build from source when test-built against a version of python3-defaults that includes 3.13 as a supported version. To reproduce this issue, build against python3-defaults (python3-all-dev etc.) from Debian experimental. What's new in Python 3.13: https://docs.python.org/3.13/whatsnew/3.13.html Python 3.13 removed the cgi module. Log snippet: dh_auto_test I: pybuild base:311: cd /<<PKGBUILDDIR>>/.pybuild/cpython3_3.13_ete3/build; python3.13 -m pytest -k "not test_ncbiquery and not test_ncbi_compare and not test_get_topology and not test_01tree_annotation and not test_00_update_database and not test_merged_id and not test_renderer" ete3/test/test_api.py ============================= test session starts ============================== platform linux -- Python 3.13.0rc2, pytest-8.3.3, pluggy-1.5.0 rootdir: /<<PKGBUILDDIR>> plugins: typeguard-4.3.0 collected 0 items / 1 error ==================================== ERRORS ==================================== ___ ERROR collecting .pybuild/cpython3_3.13_ete3/build/ete3/test/test_api.py ___ ImportError while importing test module '/<<PKGBUILDDIR>>/.pybuild/cpython3_3.13_ete3/build/ete3/test/test_api.py'. Hint: make sure your test modules/packages have valid Python names. Traceback: /usr/lib/python3.13/importlib/__init__.py:88: in import_module return _bootstrap._gcd_import(name[level:], package, level) ete3/__init__.py:56: in <module> from .webplugin.webapp import * ete3/webplugin/webapp.py:44: in <module> import cgi E ModuleNotFoundError: No module named 'cgi' =============================== warnings summary =============================== ete3/coretype/tree.py:365 /<<PKGBUILDDIR>>/.pybuild/cpython3_3.13_ete3/build/ete3/coretype/tree.py:365: SyntaxWarning: invalid escape sequence '\-' """ ete3/coretype/tree.py:436 /<<PKGBUILDDIR>>/.pybuild/cpython3_3.13_ete3/build/ete3/coretype/tree.py:436: SyntaxWarning: invalid escape sequence '\-' """Prunes the topology of a node to conserve only the selected list of leaf ete3/coretype/tree.py:1508 /<<PKGBUILDDIR>>/.pybuild/cpython3_3.13_ete3/build/ete3/coretype/tree.py:1508: SyntaxWarning: invalid escape sequence '\-' """ ete3/parser/newick.py:51 /<<PKGBUILDDIR>>/.pybuild/cpython3_3.13_ete3/build/ete3/parser/newick.py:51: SyntaxWarning: invalid escape sequence '\[' _ILEGAL_NEWICK_CHARS = ":;(),\[\]\t\n\r=" ete3/parser/newick.py:54 /<<PKGBUILDDIR>>/.pybuild/cpython3_3.13_ete3/build/ete3/parser/newick.py:54: SyntaxWarning: invalid escape sequence '\[' _NHX_RE = "\[&&NHX:[^\]]*\]" ete3/parser/newick.py:55 /<<PKGBUILDDIR>>/.pybuild/cpython3_3.13_ete3/build/ete3/parser/newick.py:55: SyntaxWarning: invalid escape sequence '\s' _FLOAT_RE = "\s*[+-]?\d+\.?\d*(?:[eE][-+]?\d+)?\s*" ete3/parser/newick.py:402 /<<PKGBUILDDIR>>/.pybuild/cpython3_3.13_ete3/build/ete3/parser/newick.py:402: SyntaxWarning: invalid escape sequence '\s' matcher_str= '^\s*%s\s*%s\s*(%s)?\s*$' % (FIRST_MATCH, SECOND_MATCH, _NHX_RE) ete3/utils.py:82 /<<PKGBUILDDIR>>/.pybuild/cpython3_3.13_ete3/build/ete3/utils.py:82: SyntaxWarning: invalid escape sequence '\[' return re.sub("\\033\[[^m]+m", "", string) ete3/treeview/main.py:64 /<<PKGBUILDDIR>>/.pybuild/cpython3_3.13_ete3/build/ete3/treeview/main.py:64: SyntaxWarning: invalid escape sequence '\d' _COLOR_MATCH = re.compile("^#[A-Fa-f\d]{6}$") ete3/treeview/main.py:712 /<<PKGBUILDDIR>>/.pybuild/cpython3_3.13_ete3/build/ete3/treeview/main.py:712: SyntaxWarning: invalid escape sequence '\d' compatible_code = re.sub('font-size="(\d+)"', 'font-size="\\1pt"', compatible_code) ete3/treeview/main.py:714 /<<PKGBUILDDIR>>/.pybuild/cpython3_3.13_ete3/build/ete3/treeview/main.py:714: SyntaxWarning: invalid escape sequence '\s' compatible_code = re.sub('<g [^>]+>\s*</g>', '', compatible_code) ete3/treeview/faces.py:159 /<<PKGBUILDDIR>>/.pybuild/cpython3_3.13_ete3/build/ete3/treeview/faces.py:159: SyntaxWarning: invalid escape sequence '\_' """Base Face object. All Face types (i.e. TextFace, SeqMotifFace, ete3/parser/phylip.py:76 /<<PKGBUILDDIR>>/.pybuild/cpython3_3.13_ete3/build/ete3/parser/phylip.py:76: SyntaxWarning: invalid escape sequence '\s' m = re.match("^\s*(\d+)\s+(\d+)",line) ete3/parser/phylip.py:108 /<<PKGBUILDDIR>>/.pybuild/cpython3_3.13_ete3/build/ete3/parser/phylip.py:108: SyntaxWarning: invalid escape sequence '\s' SG.id2seq[id_counter] += re.sub("\s","", line) ete3/parser/phylip.py:123 /<<PKGBUILDDIR>>/.pybuild/cpython3_3.13_ete3/build/ete3/parser/phylip.py:123: SyntaxWarning: invalid escape sequence '\s' seq = re.sub("\s","",m.groups()[1]) ete3/parser/phylip.py:138 /<<PKGBUILDDIR>>/.pybuild/cpython3_3.13_ete3/build/ete3/parser/phylip.py:138: SyntaxWarning: invalid escape sequence '\s' seq = re.sub("\s", "", line) ete3/phylo/phylotree.py:132 /<<PKGBUILDDIR>>/.pybuild/cpython3_3.13_ete3/build/ete3/phylo/phylotree.py:132: SyntaxWarning: invalid escape sequence '\d' id_match = re.compile("([^0-9])?(\d+)([^0-9])?") ete3/phylo/phylotree.py:188 /<<PKGBUILDDIR>>/.pybuild/cpython3_3.13_ete3/build/ete3/phylo/phylotree.py:188: SyntaxWarning: invalid escape sequence '\d' id_match = re.compile("([^0-9])(\d+)([^0-9])") ete3/evol/parser/codemlparser.py:74 /<<PKGBUILDDIR>>/.pybuild/cpython3_3.13_ete3/build/ete3/evol/parser/codemlparser.py:74: SyntaxWarning: invalid escape sequence '\(' k = int(re.sub ('.* \(K=([0-9]+)\)\n', '\\1', line)) ete3/evol/parser/codemlparser.py:78 /<<PKGBUILDDIR>>/.pybuild/cpython3_3.13_ete3/build/ete3/evol/parser/codemlparser.py:78: SyntaxWarning: invalid escape sequence '\d' re.match ('^[a-z]+.*(\d+\.\d{5} *){'+ str(k) +'}', line): ete3/evol/parser/codemlparser.py:82 /<<PKGBUILDDIR>>/.pybuild/cpython3_3.13_ete3/build/ete3/evol/parser/codemlparser.py:82: SyntaxWarning: invalid escape sequence '\d' classes[var] = [float(v) for v in re.findall('\d+\.\d{5}', line)] ete3/evol/parser/codemlparser.py:86 /<<PKGBUILDDIR>>/.pybuild/cpython3_3.13_ete3/build/ete3/evol/parser/codemlparser.py:86: SyntaxWarning: invalid escape sequence '\d' k = int(re.sub('.*for (\d+) classes.*\n', '\\1', line)) ete3/evol/parser/codemlparser.py:92 /<<PKGBUILDDIR>>/.pybuild/cpython3_3.13_ete3/build/ete3/evol/parser/codemlparser.py:92: SyntaxWarning: invalid escape sequence '\d' k = int(re.sub('.*for (\d+) classes.*\n', '\\1', line)) ete3/evol/parser/codemlparser.py:217 /<<PKGBUILDDIR>>/.pybuild/cpython3_3.13_ete3/build/ete3/evol/parser/codemlparser.py:217: SyntaxWarning: invalid escape sequence '\(' model._tree = EvolTree (re.findall ('\(.*\);', ''.join(all_lines))[2]) ete3/evol/parser/codemlparser.py:227 /<<PKGBUILDDIR>>/.pybuild/cpython3_3.13_ete3/build/ete3/evol/parser/codemlparser.py:227: SyntaxWarning: invalid escape sequence '\d' line = list(map (float, re.findall ('\d\.\d+', all_lines [i+j+1]))) ete3/evol/parser/codemlparser.py:240 /<<PKGBUILDDIR>>/.pybuild/cpython3_3.13_ete3/build/ete3/evol/parser/codemlparser.py:240: SyntaxWarning: invalid escape sequence '\d' line = re.sub ('.* np: *(\d+)\): +(-\d+\.\d+).*', ete3/evol/parser/codemlparser.py:245 /<<PKGBUILDDIR>>/.pybuild/cpython3_3.13_ete3/build/ete3/evol/parser/codemlparser.py:245: SyntaxWarning: invalid escape sequence '\d' line = re.sub ('.* np: *(\d+)\): +(nan).*', ete3/evol/parser/codemlparser.py:252 /<<PKGBUILDDIR>>/.pybuild/cpython3_3.13_ete3/build/ete3/evol/parser/codemlparser.py:252: SyntaxWarning: invalid escape sequence '\d' labels = re.findall ('\d+\.\.\d+', line + ' ') ete3/evol/parser/codemlparser.py:258 /<<PKGBUILDDIR>>/.pybuild/cpython3_3.13_ete3/build/ete3/evol/parser/codemlparser.py:258: SyntaxWarning: invalid escape sequence '\d' model.stats ['kappa'] = float (re.sub ('.*(\d+\.\d+).*', ete3/evol/parser/codemlparser.py:264 /<<PKGBUILDDIR>>/.pybuild/cpython3_3.13_ete3/build/ete3/evol/parser/codemlparser.py:264: SyntaxWarning: invalid escape sequence '\d' if not re.match (' +\d+\.\.\d+ +\d+\.\d+ ', line): ete3/evol/parser/codemlparser.py:265 /<<PKGBUILDDIR>>/.pybuild/cpython3_3.13_ete3/build/ete3/evol/parser/codemlparser.py:265: SyntaxWarning: invalid escape sequence '\d' if re.match (' +( +\d+\.\d+){8}', all_lines [i+1]): ete3/evol/evoltree.py:468 /<<PKGBUILDDIR>>/.pybuild/cpython3_3.13_ete3/build/ete3/evol/evoltree.py:468: SyntaxWarning: invalid escape sequence '\[' nwk += sub('\[&&NHX:mark=([ #0-9.]*)\]', r'\1', ete3/evol/evoltree.py:471 /<<PKGBUILDDIR>>/.pybuild/cpython3_3.13_ete3/build/ete3/evol/evoltree.py:471: SyntaxWarning: invalid escape sequence '\[' nwk = sub('\[&&NHX:mark=([ #0-9.]*)\]', r'\1', ete3/tools/utils.py:28 /<<PKGBUILDDIR>>/.pybuild/cpython3_3.13_ete3/build/ete3/tools/utils.py:28: SyntaxWarning: invalid escape sequence '\[' return re.sub("\\033\[[^m]+m", "", string) ete3/evol/model.py:367 /<<PKGBUILDDIR>>/.pybuild/cpython3_3.13_ete3/build/ete3/evol/model.py:367: SyntaxWarning: invalid escape sequence '\.' if sub('\..*', '', model) in AVAIL: ete3/evol/model.py:368 /<<PKGBUILDDIR>>/.pybuild/cpython3_3.13_ete3/build/ete3/evol/model.py:368: SyntaxWarning: invalid escape sequence '\.' return model, AVAIL [sub('\..*', '', model)] -- Docs: https://docs.pytest.org/en/stable/how-to/capture-warnings.html =========================== short test summary info ============================ ERROR ete3/test/test_api.py !!!!!!!!!!!!!!!!!!!! Interrupted: 1 error during collection !!!!!!!!!!!!!!!!!!!! ======================== 36 warnings, 1 error in 0.71s ========================= E: pybuild pybuild:389: test: plugin distutils failed with: exit code=2: cd /<<PKGBUILDDIR>>/.pybuild/cpython3_3.13_ete3/build; python3.13 -m pytest -k "not test_ncbiquery and not test_ncbi_compare and not test_get_topology and not test_01tree_annotation and not test_00_update_database and not test_merged_id and not test_renderer" ete3/test/test_api.py I: pybuild base:311: cd /<<PKGBUILDDIR>>/.pybuild/cpython3_3.12_ete3/build; python3.12 -m pytest -k "not test_ncbiquery and not test_ncbi_compare and not test_get_topology and not test_01tree_annotation and not test_00_update_database and not test_merged_id and not test_renderer" ete3/test/test_api.py ============================= test session starts ============================== platform linux -- Python 3.12.6, pytest-8.3.3, pluggy-1.5.0 rootdir: /<<PKGBUILDDIR>> plugins: typeguard-4.3.0 collected 53 items / 7 deselected / 46 selected ete3/test/test_api.py .............................................. [100%] =============================== warnings summary =============================== ete3/coretype/tree.py:365 /<<PKGBUILDDIR>>/.pybuild/cpython3_3.12_ete3/build/ete3/coretype/tree.py:365: SyntaxWarning: invalid escape sequence '\-' """ ete3/coretype/tree.py:436 /<<PKGBUILDDIR>>/.pybuild/cpython3_3.12_ete3/build/ete3/coretype/tree.py:436: SyntaxWarning: invalid escape sequence '\-' """Prunes the topology of a node to conserve only the selected list of leaf ete3/coretype/tree.py:1508 /<<PKGBUILDDIR>>/.pybuild/cpython3_3.12_ete3/build/ete3/coretype/tree.py:1508: SyntaxWarning: invalid escape sequence '\-' """ ete3/parser/newick.py:51 /<<PKGBUILDDIR>>/.pybuild/cpython3_3.12_ete3/build/ete3/parser/newick.py:51: SyntaxWarning: invalid escape sequence '\[' _ILEGAL_NEWICK_CHARS = ":;(),\[\]\t\n\r=" ete3/parser/newick.py:54 /<<PKGBUILDDIR>>/.pybuild/cpython3_3.12_ete3/build/ete3/parser/newick.py:54: SyntaxWarning: invalid escape sequence '\[' _NHX_RE = "\[&&NHX:[^\]]*\]" ete3/parser/newick.py:55 /<<PKGBUILDDIR>>/.pybuild/cpython3_3.12_ete3/build/ete3/parser/newick.py:55: SyntaxWarning: invalid escape sequence '\s' _FLOAT_RE = "\s*[+-]?\d+\.?\d*(?:[eE][-+]?\d+)?\s*" ete3/parser/newick.py:402 /<<PKGBUILDDIR>>/.pybuild/cpython3_3.12_ete3/build/ete3/parser/newick.py:402: SyntaxWarning: invalid escape sequence '\s' matcher_str= '^\s*%s\s*%s\s*(%s)?\s*$' % (FIRST_MATCH, SECOND_MATCH, _NHX_RE) ete3/utils.py:82 /<<PKGBUILDDIR>>/.pybuild/cpython3_3.12_ete3/build/ete3/utils.py:82: SyntaxWarning: invalid escape sequence '\[' return re.sub("\\033\[[^m]+m", "", string) ete3/treeview/main.py:64 /<<PKGBUILDDIR>>/.pybuild/cpython3_3.12_ete3/build/ete3/treeview/main.py:64: SyntaxWarning: invalid escape sequence '\d' _COLOR_MATCH = re.compile("^#[A-Fa-f\d]{6}$") ete3/treeview/main.py:712 /<<PKGBUILDDIR>>/.pybuild/cpython3_3.12_ete3/build/ete3/treeview/main.py:712: SyntaxWarning: invalid escape sequence '\d' compatible_code = re.sub('font-size="(\d+)"', 'font-size="\\1pt"', compatible_code) ete3/treeview/main.py:714 /<<PKGBUILDDIR>>/.pybuild/cpython3_3.12_ete3/build/ete3/treeview/main.py:714: SyntaxWarning: invalid escape sequence '\s' compatible_code = re.sub('<g [^>]+>\s*</g>', '', compatible_code) ete3/treeview/faces.py:159 /<<PKGBUILDDIR>>/.pybuild/cpython3_3.12_ete3/build/ete3/treeview/faces.py:159: SyntaxWarning: invalid escape sequence '\_' """Base Face object. All Face types (i.e. TextFace, SeqMotifFace, ete3/parser/phylip.py:76 /<<PKGBUILDDIR>>/.pybuild/cpython3_3.12_ete3/build/ete3/parser/phylip.py:76: SyntaxWarning: invalid escape sequence '\s' m = re.match("^\s*(\d+)\s+(\d+)",line) ete3/parser/phylip.py:108 /<<PKGBUILDDIR>>/.pybuild/cpython3_3.12_ete3/build/ete3/parser/phylip.py:108: SyntaxWarning: invalid escape sequence '\s' SG.id2seq[id_counter] += re.sub("\s","", line) ete3/parser/phylip.py:123 /<<PKGBUILDDIR>>/.pybuild/cpython3_3.12_ete3/build/ete3/parser/phylip.py:123: SyntaxWarning: invalid escape sequence '\s' seq = re.sub("\s","",m.groups()[1]) ete3/parser/phylip.py:138 /<<PKGBUILDDIR>>/.pybuild/cpython3_3.12_ete3/build/ete3/parser/phylip.py:138: SyntaxWarning: invalid escape sequence '\s' seq = re.sub("\s", "", line) ete3/phylo/phylotree.py:132 /<<PKGBUILDDIR>>/.pybuild/cpython3_3.12_ete3/build/ete3/phylo/phylotree.py:132: SyntaxWarning: invalid escape sequence '\d' id_match = re.compile("([^0-9])?(\d+)([^0-9])?") ete3/phylo/phylotree.py:188 /<<PKGBUILDDIR>>/.pybuild/cpython3_3.12_ete3/build/ete3/phylo/phylotree.py:188: SyntaxWarning: invalid escape sequence '\d' id_match = re.compile("([^0-9])(\d+)([^0-9])") ete3/evol/parser/codemlparser.py:74 /<<PKGBUILDDIR>>/.pybuild/cpython3_3.12_ete3/build/ete3/evol/parser/codemlparser.py:74: SyntaxWarning: invalid escape sequence '\(' k = int(re.sub ('.* \(K=([0-9]+)\)\n', '\\1', line)) ete3/evol/parser/codemlparser.py:78 /<<PKGBUILDDIR>>/.pybuild/cpython3_3.12_ete3/build/ete3/evol/parser/codemlparser.py:78: SyntaxWarning: invalid escape sequence '\d' re.match ('^[a-z]+.*(\d+\.\d{5} *){'+ str(k) +'}', line): ete3/evol/parser/codemlparser.py:82 /<<PKGBUILDDIR>>/.pybuild/cpython3_3.12_ete3/build/ete3/evol/parser/codemlparser.py:82: SyntaxWarning: invalid escape sequence '\d' classes[var] = [float(v) for v in re.findall('\d+\.\d{5}', line)] ete3/evol/parser/codemlparser.py:86 /<<PKGBUILDDIR>>/.pybuild/cpython3_3.12_ete3/build/ete3/evol/parser/codemlparser.py:86: SyntaxWarning: invalid escape sequence '\d' k = int(re.sub('.*for (\d+) classes.*\n', '\\1', line)) ete3/evol/parser/codemlparser.py:92 /<<PKGBUILDDIR>>/.pybuild/cpython3_3.12_ete3/build/ete3/evol/parser/codemlparser.py:92: SyntaxWarning: invalid escape sequence '\d' k = int(re.sub('.*for (\d+) classes.*\n', '\\1', line)) ete3/evol/parser/codemlparser.py:217 /<<PKGBUILDDIR>>/.pybuild/cpython3_3.12_ete3/build/ete3/evol/parser/codemlparser.py:217: SyntaxWarning: invalid escape sequence '\(' model._tree = EvolTree (re.findall ('\(.*\);', ''.join(all_lines))[2]) ete3/evol/parser/codemlparser.py:227 /<<PKGBUILDDIR>>/.pybuild/cpython3_3.12_ete3/build/ete3/evol/parser/codemlparser.py:227: SyntaxWarning: invalid escape sequence '\d' line = list(map (float, re.findall ('\d\.\d+', all_lines [i+j+1]))) ete3/evol/parser/codemlparser.py:240 /<<PKGBUILDDIR>>/.pybuild/cpython3_3.12_ete3/build/ete3/evol/parser/codemlparser.py:240: SyntaxWarning: invalid escape sequence '\d' line = re.sub ('.* np: *(\d+)\): +(-\d+\.\d+).*', ete3/evol/parser/codemlparser.py:245 /<<PKGBUILDDIR>>/.pybuild/cpython3_3.12_ete3/build/ete3/evol/parser/codemlparser.py:245: SyntaxWarning: invalid escape sequence '\d' line = re.sub ('.* np: *(\d+)\): +(nan).*', ete3/evol/parser/codemlparser.py:252 /<<PKGBUILDDIR>>/.pybuild/cpython3_3.12_ete3/build/ete3/evol/parser/codemlparser.py:252: SyntaxWarning: invalid escape sequence '\d' labels = re.findall ('\d+\.\.\d+', line + ' ') ete3/evol/parser/codemlparser.py:258 /<<PKGBUILDDIR>>/.pybuild/cpython3_3.12_ete3/build/ete3/evol/parser/codemlparser.py:258: SyntaxWarning: invalid escape sequence '\d' model.stats ['kappa'] = float (re.sub ('.*(\d+\.\d+).*', ete3/evol/parser/codemlparser.py:264 /<<PKGBUILDDIR>>/.pybuild/cpython3_3.12_ete3/build/ete3/evol/parser/codemlparser.py:264: SyntaxWarning: invalid escape sequence '\d' if not re.match (' +\d+\.\.\d+ +\d+\.\d+ ', line): ete3/evol/parser/codemlparser.py:265 /<<PKGBUILDDIR>>/.pybuild/cpython3_3.12_ete3/build/ete3/evol/parser/codemlparser.py:265: SyntaxWarning: invalid escape sequence '\d' if re.match (' +( +\d+\.\d+){8}', all_lines [i+1]): ete3/evol/evoltree.py:468 /<<PKGBUILDDIR>>/.pybuild/cpython3_3.12_ete3/build/ete3/evol/evoltree.py:468: SyntaxWarning: invalid escape sequence '\[' nwk += sub('\[&&NHX:mark=([ #0-9.]*)\]', r'\1', ete3/evol/evoltree.py:471 /<<PKGBUILDDIR>>/.pybuild/cpython3_3.12_ete3/build/ete3/evol/evoltree.py:471: SyntaxWarning: invalid escape sequence '\[' nwk = sub('\[&&NHX:mark=([ #0-9.]*)\]', r'\1', ete3/tools/utils.py:28 /<<PKGBUILDDIR>>/.pybuild/cpython3_3.12_ete3/build/ete3/tools/utils.py:28: SyntaxWarning: invalid escape sequence '\[' return re.sub("\\033\[[^m]+m", "", string) ete3/evol/model.py:367 /<<PKGBUILDDIR>>/.pybuild/cpython3_3.12_ete3/build/ete3/evol/model.py:367: SyntaxWarning: invalid escape sequence '\.' if sub('\..*', '', model) in AVAIL: ete3/evol/model.py:368 /<<PKGBUILDDIR>>/.pybuild/cpython3_3.12_ete3/build/ete3/evol/model.py:368: SyntaxWarning: invalid escape sequence '\.' return model, AVAIL [sub('\..*', '', model)] ete3/webplugin/webapp.py:44 /<<PKGBUILDDIR>>/.pybuild/cpython3_3.12_ete3/build/ete3/webplugin/webapp.py:44: DeprecationWarning: 'cgi' is deprecated and slated for removal in Python 3.13 import cgi ete3/phylomedb/phylomeDB3.py:75 /<<PKGBUILDDIR>>/.pybuild/cpython3_3.12_ete3/build/ete3/phylomedb/phylomeDB3.py:75: SyntaxWarning: invalid escape sequence '\w' ID_PATTERN = re.compile("^[Pp][Hh][Yy]\w{7}(_\w{2,7})?$") ete3/phylomedb/phylomeDB3.py:153 /<<PKGBUILDDIR>>/.pybuild/cpython3_3.12_ete3/build/ete3/phylomedb/phylomeDB3.py:153: SyntaxWarning: invalid escape sequence '\w' m = re.search("Phy(\w{7})_[\w\d]+", name) ete3/phylomedb/phylomeDB3.py:500 /<<PKGBUILDDIR>>/.pybuild/cpython3_3.12_ete3/build/ete3/phylomedb/phylomeDB3.py:500: SyntaxWarning: invalid escape sequence '\w' QUERY_OLD_REGEXP_FILTER = "^\w{3}\d{1,}$" ete3/phylomedb/phylomeDB3.py:756 /<<PKGBUILDDIR>>/.pybuild/cpython3_3.12_ete3/build/ete3/phylomedb/phylomeDB3.py:756: SyntaxWarning: invalid escape sequence '\w' QUERY_GEN_REGEXP_FILTER = "^[\w\d\-_,;:.|#@\/\\\()'<>!]+$" ete3/phylomedb/phylomeDB3.py:757 /<<PKGBUILDDIR>>/.pybuild/cpython3_3.12_ete3/build/ete3/phylomedb/phylomeDB3.py:757: SyntaxWarning: invalid escape sequence '\w' QUERY_OLD_REGEXP_FILTER = "^\w{3}\d{1,}$" ete3/phylomedb/phylomeDB3.py:758 /<<PKGBUILDDIR>>/.pybuild/cpython3_3.12_ete3/build/ete3/phylomedb/phylomeDB3.py:758: SyntaxWarning: invalid escape sequence '\w' QUERY_INT_REGEXP_FILTER = "^[Pp][Hh][Yy]\w{7}(_\w{2,7})?$" .pybuild/cpython3_3.12_ete3/build/ete3/test/test_api.py::TestEvolEvolTree::test_call_histface .pybuild/cpython3_3.12_ete3/build/ete3/test/test_api.py::TestEvolEvolTree::test_pickling /<<PKGBUILDDIR>>/.pybuild/cpython3_3.12_ete3/build/ete3/evol/parser/codemlparser.py:304: UserWarning: WARNING: labelling does not correspond (bad tree?)!! Getting them from /<<PKGBUILDDIR>>/.pybuild/cpython3_3.12_ete3/build/ete3/test/ete_evol_data//protamine/PRM1/paml/M2/M2.out warn('WARNING: labelling does not correspond (bad tree?)!!\n' + \ .pybuild/cpython3_3.12_ete3/build/ete3/test/test_api.py::TestEvolEvolTree::test_deep_copy .pybuild/cpython3_3.12_ete3/build/ete3/test/test_api.py::TestEvolEvolTree::test_labelling_tree .pybuild/cpython3_3.12_ete3/build/ete3/test/test_api.py::TestEvolEvolTree::test_load_model /<<PKGBUILDDIR>>/.pybuild/cpython3_3.12_ete3/build/ete3/evol/parser/codemlparser.py:304: UserWarning: WARNING: labelling does not correspond (bad tree?)!! Getting them from /<<PKGBUILDDIR>>/.pybuild/cpython3_3.12_ete3/build/ete3/test/ete_evol_data//protamine/PRM1/paml/fb/fb.out warn('WARNING: labelling does not correspond (bad tree?)!!\n' + \ .pybuild/cpython3_3.12_ete3/build/ete3/test/test_api.py::TestEvolEvolTree::test_get_most_likely /<<PKGBUILDDIR>>/.pybuild/cpython3_3.12_ete3/build/ete3/evol/parser/codemlparser.py:304: UserWarning: WARNING: labelling does not correspond (bad tree?)!! Getting them from /<<PKGBUILDDIR>>/.pybuild/cpython3_3.12_ete3/build/ete3/test/ete_evol_data//protamine/PRM1/paml/M1/M1.out warn('WARNING: labelling does not correspond (bad tree?)!!\n' + \ -- Docs: https://docs.pytest.org/en/stable/how-to/capture-warnings.html ================ 46 passed, 7 deselected, 49 warnings in 3.12s ================= If required, the full build log is available here (for the next 30 days): https://debusine.debian.net/artifact/783332/ This bug has been filed at "normal" severity, as we haven't started the transition to add 3.13 as a supported version, yet. This will be raised to RC as soon as that happens, hopefully well before trixie. Thanks, Stefano
