Your message dated Sat, 07 Mar 2026 15:10:25 +0000
with message-id <[email protected]>
and subject line Bug#1085363: fixed in bioxtasraw 2.4.1-1
has caused the Debian Bug report #1085363,
regarding bioxtasraw: Python SyntaxWarning
to be marked as done.
This means that you claim that the problem has been dealt with.
If this is not the case it is now your responsibility to reopen the
Bug report if necessary, and/or fix the problem forthwith.
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--
1085363: https://bugs.debian.org/cgi-bin/bugreport.cgi?bug=1085363
Debian Bug Tracking System
Contact [email protected] with problems
--- Begin Message ---
Source: bioxtasraw
Version: 2.2.2-2
User: [email protected]
Usertags: syntaxwarning
Hi Maintainer
The SyntaxWarning below were emitted when this package was tested with
pipuarts[1].
Regards
Graham
[1] https://piuparts.debian.org/sid/source/b/bioxtasraw.html
Setting up python3-bioxtasraw (2.2.2-2) ...
/usr/lib/python3/dist-packages/bioxtasraw/DENSS.py:467:
SyntaxWarning: invalid escape sequence '\s'
five_col_fit =
re.compile('\s*\d*[.]\d*[+eE-]*\d+\s+-?\d*[.]\d*[+eE-]*\d+\s+\d*[.]\d*[+eE-]*\d+\s+\d*[.]\d*[+eE-]*\d+\s+\d*[.]\d*[+eE-]*\d+\s*$')
/usr/lib/python3/dist-packages/bioxtasraw/DENSS.py:468:
SyntaxWarning: invalid escape sequence '\s'
three_col_fit =
re.compile('\s*\d*[.]\d*[+eE-]*\d+\s+-?\d*[.]\d*[+eE-]*\d+\s+\d*[.]\d*[+eE-]*\d+\s*$')
/usr/lib/python3/dist-packages/bioxtasraw/DENSS.py:469:
SyntaxWarning: invalid escape sequence '\s'
two_col_fit =
re.compile('\s*\d*[.]\d*[+eE-]*\d+\s+-?\d*[.]\d*[+eE-]*\d+\s*$')
/usr/lib/python3/dist-packages/bioxtasraw/DENSS.py:471:
SyntaxWarning: invalid escape sequence '\s'
results_fit =
re.compile('\s*Current\s+\d*[.]\d*[+eE-]*\d*\s+\d*[.]\d*[+eE-]*\d*\s+\d*[.]\d*[+eE-]*\d*\s+\d*[.]\d*[+eE-]*\d*\s+\d*[.]\d*[+eE-]*\d*\s+\d*[.]\d*[+eE-]*\d*\s*\d*[.]?\d*[+eE-]*\d*\s*$')
/usr/lib/python3/dist-packages/bioxtasraw/DENSS.py:473:
SyntaxWarning: invalid escape sequence '\s'
te_fit =
re.compile('\s*Total\s+[Ee]stimate\s*:\s+\d*[.]\d+\s*\(?[A-Za-z\s]+\)?\s*$')
/usr/lib/python3/dist-packages/bioxtasraw/DENSS.py:474:
SyntaxWarning: invalid escape sequence '\d'
te_num_fit = re.compile('\d*[.]\d+')
/usr/lib/python3/dist-packages/bioxtasraw/DENSS.py:475:
SyntaxWarning: invalid escape sequence '\s'
te_quality_fit = re.compile('[Aa][A-Za-z\s]+\)?\s*$')
/usr/lib/python3/dist-packages/bioxtasraw/DENSS.py:477:
SyntaxWarning: invalid escape sequence '\s'
p_rg_fit =
re.compile('\s*Real\s+space\s*\:?\s*Rg\:?\s*\=?\s*\d*[.]\d+[+eE-]*\d*\s*\+-\s*\d*[.]\d+[+eE-]*\d*')
/usr/lib/python3/dist-packages/bioxtasraw/DENSS.py:478:
SyntaxWarning: invalid escape sequence '\s'
q_rg_fit =
re.compile('\s*Reciprocal\s+space\s*\:?\s*Rg\:?\s*\=?\s*\d*[.]\d+[+eE-]*\d*\s*')
/usr/lib/python3/dist-packages/bioxtasraw/DENSS.py:480:
SyntaxWarning: invalid escape sequence '\s'
p_i0_fit =
re.compile('\s*Real\s+space\s*\:?[A-Za-z0-9\s\.,+-=]*\(0\)\:?\s*\=?\s*\d*[.]\d+[+eE-]*\d*\s*\+-\s*\d*[.]\d+[+eE-]*\d*')
/usr/lib/python3/dist-packages/bioxtasraw/DENSS.py:481:
SyntaxWarning: invalid escape sequence '\s'
q_i0_fit =
re.compile('\s*Reciprocal\s+space\s*\:?[A-Za-z0-9\s\.,+-=]*\(0\)\:?\s*\=?\s*\d*[.]\d+[+eE-]*\d*\s*')
/usr/lib/python3/dist-packages/bioxtasraw/DENSS.py:629:
SyntaxWarning: invalid escape sequence '\s'
iq_pattern =
re.compile('\s*\d*[.]\d*[+eE-]*\d+\s+-?\d*[.]\d*[+eE-]*\d+\s+\d*[.]\d*[+eE-]*\d+\s*')
/usr/lib/python3/dist-packages/bioxtasraw/DENSS.py:713:
SyntaxWarning: invalid escape sequence '\s'
iq_pattern =
re.compile('\s*\d*[.]\d*[+eE-]*\d+\s+-?\d*[.]\d*[+eE-]*\d+\s+\d*[.]\d*[+eE-]*\d+\s*')
/usr/lib/python3/dist-packages/bioxtasraw/DENSS.py:788:
SyntaxWarning: invalid escape sequence '\s'
iq_pattern =
re.compile('\s*\d*[.]\d*[+eE-]*\d+\s+-?\d*[.]\d*[+eE-]*\d+\s+\d*[.]\d*[+eE-]*\d+\s*')
/usr/lib/python3/dist-packages/bioxtasraw/RAWAnalysis.py:395:
SyntaxWarning: invalid escape sequence '\l'
self.subplotLabels = [('Guinier', '$q^2$', '$\ln(I(q))$', .1),
/usr/lib/python3/dist-packages/bioxtasraw/RAWAnalysis.py:396:
SyntaxWarning: invalid escape sequence '\D'
('Normalized Residual', '$q^2$', '$\Delta \ln (I(q))/\sigma (q)$', 0.1)]
/usr/lib/python3/dist-packages/bioxtasraw/RAWAnalysis.py:398:
SyntaxWarning: invalid escape sequence '\l'
self.subplotLabels = [('Guinier', '$q^2$', '$\ln(I(q))$', .1),
/usr/lib/python3/dist-packages/bioxtasraw/RAWAnalysis.py:399:
SyntaxWarning: invalid escape sequence '\D'
('Residual', '$q^2$', '$\Delta \ln (I(q))$', 0.1)]
/usr/lib/python3/dist-packages/bioxtasraw/RAWAnalysis.py:3780:
SyntaxWarning: invalid escape sequence '\i'
subplotLabels = [('Integrated Area of q*I(q)', 'q', '$\int q \cdot
I(q) dq$', 'VC')]
/usr/lib/python3/dist-packages/bioxtasraw/RAWAnalysis.py:4095:
SyntaxWarning: invalid escape sequence '\D'
'$\Delta I(q)/\sigma (q)$', 0.1))
/usr/lib/python3/dist-packages/bioxtasraw/RAWAnalysis.py:4097:
SyntaxWarning: invalid escape sequence '\D'
subplotLabels.append(('Residual', '$q$', '$\Delta I(q)$', 0.1))
/usr/lib/python3/dist-packages/bioxtasraw/RAWAnalysis.py:7839:
SyntaxWarning: invalid escape sequence '\D'
ax1.set_ylabel('$\Delta I(q)/\sigma (q)$')
/usr/lib/python3/dist-packages/bioxtasraw/RAWAnalysis.py:7841:
SyntaxWarning: invalid escape sequence '\D'
ax1.set_ylabel('$\Delta I(q)$')
/usr/lib/python3/dist-packages/bioxtasraw/RAWAnalysis.py:10339:
SyntaxWarning: invalid escape sequence '\c'
ax0.set_ylabel('$\chi^2$', fontsize='small')
/usr/lib/python3/dist-packages/bioxtasraw/RAWAnalysis.py:10351:
SyntaxWarning: invalid escape sequence '\m'
ax2.set_ylabel('Support Volume ($\mathrm{\AA^{3}}$)', fontsize='small')
/usr/lib/python3/dist-packages/bioxtasraw/RAWAnalysis.py:10461:
SyntaxWarning: invalid escape sequence '\m'
ax0.plot([resx],[0.5],'ro', label='Resolution = %.2f $\mathrm{\AA}$'%resn)
/usr/lib/python3/dist-packages/bioxtasraw/RAWAnalysis.py:17041:
SyntaxWarning: invalid escape sequence '\c'
('Mean Error Weighted $\chi^2$', 'Index', '$\chi^2$', 0.1),
/usr/lib/python3/dist-packages/bioxtasraw/RAWAnalysis.py:17041:
SyntaxWarning: invalid escape sequence '\c'
('Mean Error Weighted $\chi^2$', 'Index', '$\chi^2$', 0.1),
/usr/lib/python3/dist-packages/bioxtasraw/RAWAnalysis.py:17087:
SyntaxWarning: invalid escape sequence '\c'
b = self.subplots['Mean Error Weighted $\chi^2$']
/usr/lib/python3/dist-packages/bioxtasraw/RAWAnalysis.py:17103:
SyntaxWarning: invalid escape sequence '\c'
b = self.subplots['Mean Error Weighted $\chi^2$']
/usr/lib/python3/dist-packages/bioxtasraw/RAWAnalysis.py:17168:
SyntaxWarning: invalid escape sequence '\c'
b = self.subplots['Mean Error Weighted $\chi^2$']
/usr/lib/python3/dist-packages/bioxtasraw/RAWAnalysis.py:17253:
SyntaxWarning: invalid escape sequence '\c'
b = self.subplots['Mean Error Weighted $\chi^2$']
/usr/lib/python3/dist-packages/bioxtasraw/RAWAnalysis.py:17344:
SyntaxWarning: invalid escape sequence '\c'
b = self.subplots['Mean Error Weighted $\chi^2$']
/usr/lib/python3/dist-packages/bioxtasraw/RAWAnalysis.py:17383:
SyntaxWarning: invalid escape sequence '\c'
self.subplots['Mean Error Weighted $\chi^2$'],
/usr/lib/python3/dist-packages/bioxtasraw/RAWAnalysis.py:21329:
SyntaxWarning: invalid escape sequence '\s'
self.bottom_plot.set_ylabel('I/$\sigma$')
/usr/lib/python3/dist-packages/bioxtasraw/RAWPlot.py:1424:
SyntaxWarning: invalid escape sequence '\l'
'guinier' : ('Guinier', '$q^2$ [1/A^2]', '$\ln(I(q)$'),
/usr/lib/python3/dist-packages/bioxtasraw/SASCalc.py:373:
SyntaxWarning: invalid escape sequence '\i'
"""Calculates the volume of correlation as the ratio of i0 to $\int q*I dq$
/usr/lib/python3/dist-packages/bioxtasraw/SASCalc.py:1065:
SyntaxWarning: invalid escape sequence '\s'
dammif_re = 'ATSAS\s*\d+[.]\d+[.]\d*'
/usr/lib/python3/dist-packages/bioxtasraw/SASFileIO.py:392:
SyntaxWarning: invalid escape sequence '\d'
timeMonitorPattern = re.compile('\d*-second\s[a-z]*\s[()A-Z,]*\s\d*\s\d*')
/usr/lib/python3/dist-packages/bioxtasraw/SASFileIO.py:393:
SyntaxWarning: invalid escape sequence '\s'
closedShutterCountPattern = re.compile('closed\s\d*')
/usr/lib/python3/dist-packages/bioxtasraw/SASFileIO.py:394:
SyntaxWarning: invalid escape sequence '\s'
datePattern = re.compile('#D\s.*\n')
/usr/lib/python3/dist-packages/bioxtasraw/SASFileIO.py:1223:
SyntaxWarning: invalid escape sequence '\s'
start_match = '\s*'
/usr/lib/python3/dist-packages/bioxtasraw/SASFileIO.py:1224:
SyntaxWarning: invalid escape sequence '\s'
end_match = '\s*$'
/usr/lib/python3/dist-packages/bioxtasraw/SASFileIO.py:1225:
SyntaxWarning: invalid escape sequence '\+'
num_match = '[\+-]?\d+\.?\d*[+eE-]*\d*'
/usr/lib/python3/dist-packages/bioxtasraw/SASFileIO.py:1226:
SyntaxWarning: invalid escape sequence '\s'
sep_match = '\s*[\s,]\s*'
/usr/lib/python3/dist-packages/bioxtasraw/SASFileIO.py:1227:
SyntaxWarning: invalid escape sequence '\s'
alt_sep_match = '\s*[\s,]?\s*'
/usr/lib/python3/dist-packages/bioxtasraw/SASFileIO.py:1760:
SyntaxWarning: invalid escape sequence '\s'
results_fit =
re.compile('\s*Current\s+\d*[.]\d*[+eE-]*\d*\s+\d*[.]\d*[+eE-]*\d*\s+\d*[.]\d*[+eE-]*\d*\s+\d*[.]\d*[+eE-]*\d*\s+\d*[.]\d*[+eE-]*\d*\s+\d*[.]\d*[+eE-]*\d*\s*\d*[.]?\d*[+eE-]*\d*\s*$')
/usr/lib/python3/dist-packages/bioxtasraw/SASFileIO.py:1762:
SyntaxWarning: invalid escape sequence '\s'
te_fit =
re.compile('\s*Total\s+[Ee]stimate\s*:\s+\d*[.]\d+\s*\(?[A-Za-z\s]+\)?\s*$')
/usr/lib/python3/dist-packages/bioxtasraw/SASFileIO.py:1763:
SyntaxWarning: invalid escape sequence '\d'
te_num_fit = re.compile('\d*[.]\d+')
/usr/lib/python3/dist-packages/bioxtasraw/SASFileIO.py:1764:
SyntaxWarning: invalid escape sequence '\s'
te_quality_fit = re.compile('[Aa][A-Za-z\s]+\)?\s*$')
/usr/lib/python3/dist-packages/bioxtasraw/SASFileIO.py:1766:
SyntaxWarning: invalid escape sequence '\s'
p_rg_fit =
re.compile('\s*Real\s+space\s*\:?\s*Rg\:?\s*\=?\s*\d*[.]\d+[+eE-]*\d*\s*\+-\s*\d*[.]\d+[+eE-]*\d*')
/usr/lib/python3/dist-packages/bioxtasraw/SASFileIO.py:1767:
SyntaxWarning: invalid escape sequence '\s'
q_rg_fit =
re.compile('\s*Reciprocal\s+space\s*\:?\s*Rg\:?\s*\=?\s*\d*[.]\d+[+eE-]*\d*\s*')
/usr/lib/python3/dist-packages/bioxtasraw/SASFileIO.py:1769:
SyntaxWarning: invalid escape sequence '\s'
p_i0_fit =
re.compile('\s*Real\s+space\s*\:?[A-Za-z0-9\s\.,+-=]*\(0\)\:?\s*\=?\s*\d*[.]\d+[+eE-]*\d*\s*\+-\s*\d*[.]\d+[+eE-]*\d*')
/usr/lib/python3/dist-packages/bioxtasraw/SASFileIO.py:1770:
SyntaxWarning: invalid escape sequence '\s'
q_i0_fit =
re.compile('\s*Reciprocal\s+space\s*\:?[A-Za-z0-9\s\.,+-=]*\(0\)\:?\s*\=?\s*\d*[.]\d+[+eE-]*\d*\s*')
/usr/lib/python3/dist-packages/bioxtasraw/SASFileIO.py:1772:
SyntaxWarning: invalid escape sequence '\s'
alpha_fit =
re.compile('\s*Current\s+ALPHA\s*\:?\s*\=?\s*\d*[.]\d+[+eE-]*\d*\s*')
/usr/lib/python3/dist-packages/bioxtasraw/SASFileIO.py:2659:
SyntaxWarning: invalid escape sequence '\s'
res_pattern =
re.compile('\s*Ensemble\s*Resolution\s*=?\s*\d+\.?\d*\s*\+?-?\s*\d+\s*[a-zA-Z]*')
/usr/lib/python3/dist-packages/bioxtasraw/SASFileIO.py:2730:
SyntaxWarning: invalid escape sequence '\s'
cluster_pattern = re.compile('\s*Cluster\s*\d')
/usr/lib/python3/dist-packages/bioxtasraw/SASFileIO.py:2731:
SyntaxWarning: invalid escape sequence '\s'
distance_pattern = re.compile('\s*\d\s*\d\s*\d+[.]\d+\s*$')
/usr/lib/python3/dist-packages/bioxtasraw/SASFileIO.py:3185:
SyntaxWarning: invalid escape sequence '\s'
param_pattern = re.compile('[a-zA-Z0-9_]*\s*[:]\s+.*')
/usr/lib/python3/dist-packages/bioxtasraw/SASFileIO.py:3250:
SyntaxWarning: invalid escape sequence '\s'
param_pattern = re.compile('[a-zA-Z0-9_]*\s*[:]\s+.*')
--- End Message ---
--- Begin Message ---
Source: bioxtasraw
Source-Version: 2.4.1-1
Done: Roland Mas <[email protected]>
We believe that the bug you reported is fixed in the latest version of
bioxtasraw, which is due to be installed in the Debian FTP archive.
A summary of the changes between this version and the previous one is
attached.
Thank you for reporting the bug, which will now be closed. If you
have further comments please address them to [email protected],
and the maintainer will reopen the bug report if appropriate.
Debian distribution maintenance software
pp.
Roland Mas <[email protected]> (supplier of updated bioxtasraw package)
(This message was generated automatically at their request; if you
believe that there is a problem with it please contact the archive
administrators by mailing [email protected])
-----BEGIN PGP SIGNED MESSAGE-----
Hash: SHA512
Format: 1.8
Date: Sat, 07 Mar 2026 15:16:46 +0100
Source: bioxtasraw
Architecture: source
Version: 2.4.1-1
Distribution: unstable
Urgency: medium
Maintainer: Debian Science Maintainers
<[email protected]>
Changed-By: Roland Mas <[email protected]>
Closes: 1085363
Changes:
bioxtasraw (2.4.1-1) unstable; urgency=medium
.
* New upstream release. Combined with a small patch, this fixes: "Python
SyntaxWarning", thanks to Graham Inggs (Closes: #1085363).
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