Bug#1120217: marked as done (macs: FTBFS: NameError: name 'long' is not defined)

Sat, 29 Nov 2025 07:07:21 -0800 

Your message dated Sat, 29 Nov 2025 15:05:24 +0000
with message-id <[email protected]>
and subject line Bug#1120217: fixed in macs 3.0.2-2
has caused the Debian Bug report #1120217,
regarding macs: FTBFS: NameError: name 'long' is not defined
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.

(NB: If you are a system administrator and have no idea what this
message is talking about, this may indicate a serious mail system
misconfiguration somewhere. Please contact [email protected]
immediately.)


-- 
1120217: https://bugs.debian.org/cgi-bin/bugreport.cgi?bug=1120217
Debian Bug Tracking System
Contact [email protected] with problems
--- Begin Message --- 
Package: src:macs
Version: 3.0.2-1
Severity: serious
Tags: ftbfs forky sid

Dear maintainer:

During a rebuild of all packages in unstable, this package failed to build.

Below you will find the last part of the build log (probably the most
relevant part, but not necessarily). If required, the full build log
is available here:

https://people.debian.org/~sanvila/build-logs/202511/

About the archive rebuild: The build was made on virtual machines from AWS,
using sbuild and a reduced chroot with only build-essential packages.

If you cannot reproduce the bug please contact me privately, as I
am willing to provide ssh access to a virtual machine where the bug is
fully reproducible.

If this is really a bug in one of the build-depends, please use
reassign and add an affects on src:macs, so that this is still
visible in the BTS web page for this package.

Thanks.

--------------------------------------------------------------------------------
[...]
 debian/rules clean
dh clean --buildsystem=pybuild
   debian/rules override_dh_auto_clean
make[1]: Entering directory '/<<PKGBUILDDIR>>'
rm -Rf test/macs3.0.2-1* test/speedtest*
rm -f debian/*.1 debian/*-man-include
make[1]: Leaving directory '/<<PKGBUILDDIR>>'
   dh_autoreconf_clean -O--buildsystem=pybuild
   dh_clean -O--buildsystem=pybuild
 debian/rules binary
dh binary --buildsystem=pybuild
   dh_update_autotools_config -O--buildsystem=pybuild
   dh_autoreconf -O--buildsystem=pybuild
   dh_auto_configure -O--buildsystem=pybuild
   debian/rules override_dh_auto_build

[... snipped ...]

 ... clear!
 checking 
../temp/macs3.0.2-1-3.13_run_callpeak_pe_narrow/run_callpeak_bedpe_narrow.log...
 ... clear!
 checking 
../temp/macs3.0.2-1-3.13_run_callpeak_pe_narrow/run_callpeak_pe_narrow_onlychip.log...
 ... clear!
 checking ../temp/macs3.0.2-1-3.13_run_callvar/run_callvar_PE.log...
 ... clear!
 checking ../temp/macs3.0.2-1-3.13_run_cmbreps/run_cmbreps_fisher.log...
 ... clear!
 checking ../temp/macs3.0.2-1-3.13_run_cmbreps/run_cmbreps_max.log...
 ... clear!
 checking ../temp/macs3.0.2-1-3.13_run_cmbreps/run_cmbreps_mean.log...
 ... clear!
 checking ../temp/macs3.0.2-1-3.13_run_filterdup/run_filterdup.log...
 ... clear!
 checking ../temp/macs3.0.2-1-3.13_run_filterdup/run_filterdup_d.log...
 ... clear!
 checking ../temp/macs3.0.2-1-3.13_run_filterdup/run_filterdup_pe.log...
 ... clear!
 checking ../temp/macs3.0.2-1-3.13_run_filterdup/run_filterdup_pe_d.log...
 ... clear!
 checking ../temp/macs3.0.2-1-3.13_run_hmmratac/run_hmmratac.log...
NameError: name 'long' is not defined
 ... error/warning found!
the log file:
INFO  @ 06 Nov 2025 10:17:21: [119 MB] 
# Command line: hmmratac -i yeast_500k_SRR1822137.bam --hmm-type gaussian -n 
hmmratac_yeast500k --save-training-data --outdir 
../temp/macs3.0.2-1-3.13_run_hmmratac
# Random seed selected as: 10151
# Use --hmm-type to select a Gaussian ('gaussian') or Poisson ('poisson') model 
for the hidden markov model in HMMRATAC. Default: 'gaussian'. 
 
INFO  @ 06 Nov 2025 10:17:21: [119 MB] #1 Read fragments from BAMPE file... 
INFO  @ 06 Nov 2025 10:17:22: [151 MB] 467908 fragments have been read. 
INFO  @ 06 Nov 2025 10:17:22: [151 MB] #2 Use EM algorithm to estimate means 
and stddevs of fragment lengths 
INFO  @ 06 Nov 2025 10:17:22: [151 MB] #  for mono-, di-, and tri-nucleosomal 
signals... 
INFO  @ 06 Nov 2025 10:17:22: [151 MB] # A random seed 10151 has been used in 
the sampling function 
INFO  @ 06 Nov 2025 10:17:22: [151 MB] # Downsampled 24874 fragments will be 
used for EM training... 
Traceback (most recent call last):
  File "/<<PKGBUILDDIR>>/.pybuild/cpython3_3.13_MACS3/scripts/macs3", line 983, 
in <module>
    main()
    ~~~~^^
  File "/<<PKGBUILDDIR>>/.pybuild/cpython3_3.13_MACS3/scripts/macs3", line 97, 
in main
    run( args )
    ~~~^^^^^^^^
  File 
"/<<PKGBUILDDIR>>/.pybuild/cpython3_3.13_MACS3/build/MACS3/Commands/hmmratac_cmd.py",
 line 136, in run
    em_trainer = HMMR_EM( petrack, options.em_means[1:4], 
options.em_stddevs[1:4], seed = options.hmm_randomSeed )
  File "MACS3/Signal/HMMR_EM.pyx", line 165, in 
MACS3.Signal.HMMR_EM.HMMR_EM.__init__
  File "MACS3/Signal/HMMR_EM.pyx", line 191, in 
MACS3.Signal.HMMR_EM.HMMR_EM._HMMR_EM__learn
  File "MACS3/Signal/HMMR_EM.pyx", line 227, in 
MACS3.Signal.HMMR_EM.HMMR_EM._HMMR_EM__iterate
NameError: name 'long' is not defined
 checking ../temp/macs3.0.2-1-3.13_run_hmmratac/run_hmmratac_bedpe.log...
NameError: name 'long' is not defined
 ... error/warning found!
the log file:
INFO  @ 06 Nov 2025 10:17:24: [120 MB] 
# Command line: hmmratac -i yeast_500k_SRR1822137.bedpe.gz -n 
hmmratac_yeast500k_bedpe -f BEDPE --outdir ../temp/macs3.0.2-1-3.13_run_hmmratac
# Random seed selected as: 10151
# Use --hmm-type to select a Gaussian ('gaussian') or Poisson ('poisson') model 
for the hidden markov model in HMMRATAC. Default: 'gaussian'. 
 
INFO  @ 06 Nov 2025 10:17:24: [120 MB] #1 Read fragments from BEDPE file... 
INFO  @ 06 Nov 2025 10:17:25: [174 MB] #2 Use EM algorithm to estimate means 
and stddevs of fragment lengths 
INFO  @ 06 Nov 2025 10:17:25: [174 MB] #  for mono-, di-, and tri-nucleosomal 
signals... 
INFO  @ 06 Nov 2025 10:17:25: [174 MB] # A random seed 10151 has been used in 
the sampling function 
INFO  @ 06 Nov 2025 10:17:25: [174 MB] # Downsampled 24874 fragments will be 
used for EM training... 
Traceback (most recent call last):
  File "/<<PKGBUILDDIR>>/.pybuild/cpython3_3.13_MACS3/scripts/macs3", line 983, 
in <module>
    main()
    ~~~~^^
  File "/<<PKGBUILDDIR>>/.pybuild/cpython3_3.13_MACS3/scripts/macs3", line 97, 
in main
    run( args )
    ~~~^^^^^^^^
  File 
"/<<PKGBUILDDIR>>/.pybuild/cpython3_3.13_MACS3/build/MACS3/Commands/hmmratac_cmd.py",
 line 136, in run
    em_trainer = HMMR_EM( petrack, options.em_means[1:4], 
options.em_stddevs[1:4], seed = options.hmm_randomSeed )
  File "MACS3/Signal/HMMR_EM.pyx", line 165, in 
MACS3.Signal.HMMR_EM.HMMR_EM.__init__
  File "MACS3/Signal/HMMR_EM.pyx", line 191, in 
MACS3.Signal.HMMR_EM.HMMR_EM._HMMR_EM__learn
  File "MACS3/Signal/HMMR_EM.pyx", line 227, in 
MACS3.Signal.HMMR_EM.HMMR_EM._HMMR_EM__iterate
NameError: name 'long' is not defined
 checking 
../temp/macs3.0.2-1-3.13_run_hmmratac/run_hmmratac_bedpe_poisson.log...
NameError: name 'long' is not defined
 ... error/warning found!
the log file:
INFO  @ 06 Nov 2025 10:17:26: [119 MB] 
# Command line: hmmratac -i yeast_500k_SRR1822137.bedpe.gz --hmm-type poisson 
-n hmmratac_yeast500k_bedpe_poisson -f BEDPE --outdir 
../temp/macs3.0.2-1-3.13_run_hmmratac
# Random seed selected as: 10151
# Use --hmm-type to select a Gaussian ('gaussian') or Poisson ('poisson') model 
for the hidden markov model in HMMRATAC. Default: 'gaussian'. 
 
INFO  @ 06 Nov 2025 10:17:26: [119 MB] #1 Read fragments from BEDPE file... 
INFO  @ 06 Nov 2025 10:17:26: [174 MB] #2 Use EM algorithm to estimate means 
and stddevs of fragment lengths 
INFO  @ 06 Nov 2025 10:17:26: [174 MB] #  for mono-, di-, and tri-nucleosomal 
signals... 
INFO  @ 06 Nov 2025 10:17:26: [174 MB] # A random seed 10151 has been used in 
the sampling function 
INFO  @ 06 Nov 2025 10:17:26: [174 MB] # Downsampled 24874 fragments will be 
used for EM training... 
Traceback (most recent call last):
  File "/<<PKGBUILDDIR>>/.pybuild/cpython3_3.13_MACS3/scripts/macs3", line 983, 
in <module>
    main()
    ~~~~^^
  File "/<<PKGBUILDDIR>>/.pybuild/cpython3_3.13_MACS3/scripts/macs3", line 97, 
in main
    run( args )
    ~~~^^^^^^^^
  File 
"/<<PKGBUILDDIR>>/.pybuild/cpython3_3.13_MACS3/build/MACS3/Commands/hmmratac_cmd.py",
 line 136, in run
    em_trainer = HMMR_EM( petrack, options.em_means[1:4], 
options.em_stddevs[1:4], seed = options.hmm_randomSeed )
  File "MACS3/Signal/HMMR_EM.pyx", line 165, in 
MACS3.Signal.HMMR_EM.HMMR_EM.__init__
  File "MACS3/Signal/HMMR_EM.pyx", line 191, in 
MACS3.Signal.HMMR_EM.HMMR_EM._HMMR_EM__learn
  File "MACS3/Signal/HMMR_EM.pyx", line 227, in 
MACS3.Signal.HMMR_EM.HMMR_EM._HMMR_EM__iterate
NameError: name 'long' is not defined
 checking 
../temp/macs3.0.2-1-3.13_run_hmmratac/run_hmmratac_load_hmm_model.log...
NameError: name 'long' is not defined
 ... error/warning found!
the log file:
INFO  @ 06 Nov 2025 10:17:30: [119 MB] 
# Command line: hmmratac -i yeast_500k_SRR1822137.bam -n 
hmmratac_yeast500k_load_hmm_model --model 
../temp/macs3.0.2-1-3.13_run_hmmratac/hmmratac_yeast500k_model.json --outdir 
../temp/macs3.0.2-1-3.13_run_hmmratac
# Random seed selected as: 10151
# Use --hmm-type to select a Gaussian ('gaussian') or Poisson ('poisson') model 
for the hidden markov model in HMMRATAC. Default: 'gaussian'. 
 
INFO  @ 06 Nov 2025 10:17:30: [119 MB] #1 Read fragments from BAMPE file... 
INFO  @ 06 Nov 2025 10:17:31: [153 MB] 467908 fragments have been read. 
INFO  @ 06 Nov 2025 10:17:32: [153 MB] #2 Use EM algorithm to estimate means 
and stddevs of fragment lengths 
INFO  @ 06 Nov 2025 10:17:32: [153 MB] #  for mono-, di-, and tri-nucleosomal 
signals... 
INFO  @ 06 Nov 2025 10:17:32: [153 MB] # A random seed 10151 has been used in 
the sampling function 
INFO  @ 06 Nov 2025 10:17:32: [153 MB] # Downsampled 24874 fragments will be 
used for EM training... 
Traceback (most recent call last):
  File "/<<PKGBUILDDIR>>/.pybuild/cpython3_3.13_MACS3/scripts/macs3", line 983, 
in <module>
    main()
    ~~~~^^
  File "/<<PKGBUILDDIR>>/.pybuild/cpython3_3.13_MACS3/scripts/macs3", line 97, 
in main
    run( args )
    ~~~^^^^^^^^
  File 
"/<<PKGBUILDDIR>>/.pybuild/cpython3_3.13_MACS3/build/MACS3/Commands/hmmratac_cmd.py",
 line 136, in run
    em_trainer = HMMR_EM( petrack, options.em_means[1:4], 
options.em_stddevs[1:4], seed = options.hmm_randomSeed )
  File "MACS3/Signal/HMMR_EM.pyx", line 165, in 
MACS3.Signal.HMMR_EM.HMMR_EM.__init__
  File "MACS3/Signal/HMMR_EM.pyx", line 191, in 
MACS3.Signal.HMMR_EM.HMMR_EM._HMMR_EM__learn
  File "MACS3/Signal/HMMR_EM.pyx", line 227, in 
MACS3.Signal.HMMR_EM.HMMR_EM._HMMR_EM__iterate
NameError: name 'long' is not defined
 checking 
../temp/macs3.0.2-1-3.13_run_hmmratac/run_hmmratac_load_hmm_model_poisson.log...
NameError: name 'long' is not defined
 ... error/warning found!
the log file:
INFO  @ 06 Nov 2025 10:17:32: [120 MB] 
# Command line: hmmratac -i yeast_500k_SRR1822137.bam --hmm-type poisson -n 
hmmratac_yeast500k_poisson_load_hmm_model --model 
../temp/macs3.0.2-1-3.13_run_hmmratac/hmmratac_yeast500k_poisson_model.json 
--outdir ../temp/macs3.0.2-1-3.13_run_hmmratac
# Random seed selected as: 10151
# Use --hmm-type to select a Gaussian ('gaussian') or Poisson ('poisson') model 
for the hidden markov model in HMMRATAC. Default: 'gaussian'. 
 
INFO  @ 06 Nov 2025 10:17:32: [120 MB] #1 Read fragments from BAMPE file... 
INFO  @ 06 Nov 2025 10:17:33: [153 MB] 467908 fragments have been read. 
INFO  @ 06 Nov 2025 10:17:33: [153 MB] #2 Use EM algorithm to estimate means 
and stddevs of fragment lengths 
INFO  @ 06 Nov 2025 10:17:33: [153 MB] #  for mono-, di-, and tri-nucleosomal 
signals... 
INFO  @ 06 Nov 2025 10:17:33: [153 MB] # A random seed 10151 has been used in 
the sampling function 
INFO  @ 06 Nov 2025 10:17:33: [153 MB] # Downsampled 24874 fragments will be 
used for EM training... 
Traceback (most recent call last):
  File "/<<PKGBUILDDIR>>/.pybuild/cpython3_3.13_MACS3/scripts/macs3", line 983, 
in <module>
    main()
    ~~~~^^
  File "/<<PKGBUILDDIR>>/.pybuild/cpython3_3.13_MACS3/scripts/macs3", line 97, 
in main
    run( args )
    ~~~^^^^^^^^
  File 
"/<<PKGBUILDDIR>>/.pybuild/cpython3_3.13_MACS3/build/MACS3/Commands/hmmratac_cmd.py",
 line 136, in run
    em_trainer = HMMR_EM( petrack, options.em_means[1:4], 
options.em_stddevs[1:4], seed = options.hmm_randomSeed )
  File "MACS3/Signal/HMMR_EM.pyx", line 165, in 
MACS3.Signal.HMMR_EM.HMMR_EM.__init__
  File "MACS3/Signal/HMMR_EM.pyx", line 191, in 
MACS3.Signal.HMMR_EM.HMMR_EM._HMMR_EM__learn
  File "MACS3/Signal/HMMR_EM.pyx", line 227, in 
MACS3.Signal.HMMR_EM.HMMR_EM._HMMR_EM__iterate
NameError: name 'long' is not defined
 checking 
../temp/macs3.0.2-1-3.13_run_hmmratac/run_hmmratac_load_training_regions.log...
NameError: name 'long' is not defined
 ... error/warning found!
the log file:
INFO  @ 06 Nov 2025 10:17:27: [119 MB] 
# Command line: hmmratac -i yeast_500k_SRR1822137.bam -n 
hmmratac_yeast500k_load_training_regions -t 
../temp/macs3.0.2-1-3.13_run_hmmratac/hmmratac_yeast500k_training_regions.bed 
--outdir ../temp/macs3.0.2-1-3.13_run_hmmratac
# Using -t, --training input to train HMM instead of using fold change settings 
to select. 
# Random seed selected as: 10151
# Use --hmm-type to select a Gaussian ('gaussian') or Poisson ('poisson') model 
for the hidden markov model in HMMRATAC. Default: 'gaussian'. 
 
INFO  @ 06 Nov 2025 10:17:27: [119 MB] #1 Read fragments from BAMPE file... 
INFO  @ 06 Nov 2025 10:17:28: [151 MB] 467908 fragments have been read. 
INFO  @ 06 Nov 2025 10:17:28: [151 MB] #2 Use EM algorithm to estimate means 
and stddevs of fragment lengths 
INFO  @ 06 Nov 2025 10:17:28: [151 MB] #  for mono-, di-, and tri-nucleosomal 
signals... 
INFO  @ 06 Nov 2025 10:17:28: [151 MB] # A random seed 10151 has been used in 
the sampling function 
INFO  @ 06 Nov 2025 10:17:28: [151 MB] # Downsampled 24874 fragments will be 
used for EM training... 
Traceback (most recent call last):
  File "/<<PKGBUILDDIR>>/.pybuild/cpython3_3.13_MACS3/scripts/macs3", line 983, 
in <module>
    main()
    ~~~~^^
  File "/<<PKGBUILDDIR>>/.pybuild/cpython3_3.13_MACS3/scripts/macs3", line 97, 
in main
    run( args )
    ~~~^^^^^^^^
  File 
"/<<PKGBUILDDIR>>/.pybuild/cpython3_3.13_MACS3/build/MACS3/Commands/hmmratac_cmd.py",
 line 136, in run
    em_trainer = HMMR_EM( petrack, options.em_means[1:4], 
options.em_stddevs[1:4], seed = options.hmm_randomSeed )
  File "MACS3/Signal/HMMR_EM.pyx", line 165, in 
MACS3.Signal.HMMR_EM.HMMR_EM.__init__
  File "MACS3/Signal/HMMR_EM.pyx", line 191, in 
MACS3.Signal.HMMR_EM.HMMR_EM._HMMR_EM__learn
  File "MACS3/Signal/HMMR_EM.pyx", line 227, in 
MACS3.Signal.HMMR_EM.HMMR_EM._HMMR_EM__iterate
NameError: name 'long' is not defined
 checking 
../temp/macs3.0.2-1-3.13_run_hmmratac/run_hmmratac_load_training_regions_poisson.log...
NameError: name 'long' is not defined
 ... error/warning found!
the log file:
INFO  @ 06 Nov 2025 10:17:28: [119 MB] 
# Command line: hmmratac -i yeast_500k_SRR1822137.bam --hmm-type poisson -n 
hmmratac_yeast500k_poisson_load_training_regions -t 
../temp/macs3.0.2-1-3.13_run_hmmratac/hmmratac_yeast500k_poisson_training_regions.bed
 --outdir ../temp/macs3.0.2-1-3.13_run_hmmratac
# Using -t, --training input to train HMM instead of using fold change settings 
to select. 
# Random seed selected as: 10151
# Use --hmm-type to select a Gaussian ('gaussian') or Poisson ('poisson') model 
for the hidden markov model in HMMRATAC. Default: 'gaussian'. 
 
INFO  @ 06 Nov 2025 10:17:28: [119 MB] #1 Read fragments from BAMPE file... 
INFO  @ 06 Nov 2025 10:17:29: [152 MB] 467908 fragments have been read. 
INFO  @ 06 Nov 2025 10:17:30: [152 MB] #2 Use EM algorithm to estimate means 
and stddevs of fragment lengths 
INFO  @ 06 Nov 2025 10:17:30: [152 MB] #  for mono-, di-, and tri-nucleosomal 
signals... 
INFO  @ 06 Nov 2025 10:17:30: [152 MB] # A random seed 10151 has been used in 
the sampling function 
INFO  @ 06 Nov 2025 10:17:30: [152 MB] # Downsampled 24874 fragments will be 
used for EM training... 
Traceback (most recent call last):
  File "/<<PKGBUILDDIR>>/.pybuild/cpython3_3.13_MACS3/scripts/macs3", line 983, 
in <module>
    main()
    ~~~~^^
  File "/<<PKGBUILDDIR>>/.pybuild/cpython3_3.13_MACS3/scripts/macs3", line 97, 
in main
    run( args )
    ~~~^^^^^^^^
  File 
"/<<PKGBUILDDIR>>/.pybuild/cpython3_3.13_MACS3/build/MACS3/Commands/hmmratac_cmd.py",
 line 136, in run
    em_trainer = HMMR_EM( petrack, options.em_means[1:4], 
options.em_stddevs[1:4], seed = options.hmm_randomSeed )
  File "MACS3/Signal/HMMR_EM.pyx", line 165, in 
MACS3.Signal.HMMR_EM.HMMR_EM.__init__
  File "MACS3/Signal/HMMR_EM.pyx", line 191, in 
MACS3.Signal.HMMR_EM.HMMR_EM._HMMR_EM__learn
  File "MACS3/Signal/HMMR_EM.pyx", line 227, in 
MACS3.Signal.HMMR_EM.HMMR_EM._HMMR_EM__iterate
NameError: name 'long' is not defined
 checking ../temp/macs3.0.2-1-3.13_run_hmmratac/run_hmmratac_poisson.log...
NameError: name 'long' is not defined
 ... error/warning found!
the log file:
INFO  @ 06 Nov 2025 10:17:23: [119 MB] 
# Command line: hmmratac -i yeast_500k_SRR1822137.bam --hmm-type poisson -n 
hmmratac_yeast500k_poisson --save-training-data --outdir 
../temp/macs3.0.2-1-3.13_run_hmmratac
# Random seed selected as: 10151
# Use --hmm-type to select a Gaussian ('gaussian') or Poisson ('poisson') model 
for the hidden markov model in HMMRATAC. Default: 'gaussian'. 
 
INFO  @ 06 Nov 2025 10:17:23: [119 MB] #1 Read fragments from BAMPE file... 
INFO  @ 06 Nov 2025 10:17:24: [152 MB] 467908 fragments have been read. 
INFO  @ 06 Nov 2025 10:17:24: [152 MB] #2 Use EM algorithm to estimate means 
and stddevs of fragment lengths 
INFO  @ 06 Nov 2025 10:17:24: [152 MB] #  for mono-, di-, and tri-nucleosomal 
signals... 
INFO  @ 06 Nov 2025 10:17:24: [152 MB] # A random seed 10151 has been used in 
the sampling function 
INFO  @ 06 Nov 2025 10:17:24: [152 MB] # Downsampled 24874 fragments will be 
used for EM training... 
Traceback (most recent call last):
  File "/<<PKGBUILDDIR>>/.pybuild/cpython3_3.13_MACS3/scripts/macs3", line 983, 
in <module>
    main()
    ~~~~^^
  File "/<<PKGBUILDDIR>>/.pybuild/cpython3_3.13_MACS3/scripts/macs3", line 97, 
in main
    run( args )
    ~~~^^^^^^^^
  File 
"/<<PKGBUILDDIR>>/.pybuild/cpython3_3.13_MACS3/build/MACS3/Commands/hmmratac_cmd.py",
 line 136, in run
    em_trainer = HMMR_EM( petrack, options.em_means[1:4], 
options.em_stddevs[1:4], seed = options.hmm_randomSeed )
  File "MACS3/Signal/HMMR_EM.pyx", line 165, in 
MACS3.Signal.HMMR_EM.HMMR_EM.__init__
  File "MACS3/Signal/HMMR_EM.pyx", line 191, in 
MACS3.Signal.HMMR_EM.HMMR_EM._HMMR_EM__learn
  File "MACS3/Signal/HMMR_EM.pyx", line 227, in 
MACS3.Signal.HMMR_EM.HMMR_EM._HMMR_EM__iterate
NameError: name 'long' is not defined
 checking ../temp/macs3.0.2-1-3.13_run_pileup/run_pileup_CTRL.bed.log...
 ... clear!
 checking ../temp/macs3.0.2-1-3.13_run_pileup/run_pileup_CTRLPE.bampe.log...
 ... clear!
 checking ../temp/macs3.0.2-1-3.13_run_pileup/run_pileup_CTRLPE.bedpe.log...
 ... clear!
 checking ../temp/macs3.0.2-1-3.13_run_pileup/run_pileup_ChIP.bed.log...
 ... clear!
 checking ../temp/macs3.0.2-1-3.13_run_pileup/run_pileup_ChIPPE.bampe.log...
 ... clear!
 checking ../temp/macs3.0.2-1-3.13_run_pileup/run_pileup_ChIPPE.bedpe.log...
 ... clear!
 checking ../temp/macs3.0.2-1-3.13_run_predictd/run_predictd.log...
 ... clear!
 checking ../temp/macs3.0.2-1-3.13_run_predictd/run_predictd_bampe.log...
 ... clear!
 checking ../temp/macs3.0.2-1-3.13_run_predictd/run_predictd_bedpe.log...
 ... clear!
 checking ../temp/macs3.0.2-1-3.13_run_randsample/run_randsample.log...
 ... clear!
 checking ../temp/macs3.0.2-1-3.13_run_randsample/run_randsample_bampe.log...
 ... clear!
 checking ../temp/macs3.0.2-1-3.13_run_randsample/run_randsample_bedpe.log...
 ... clear!
 checking ../temp/macs3.0.2-1-3.13_run_refinepeak/run_refinepeak_w_ofile.log...
 ... clear!
 checking ../temp/macs3.0.2-1-3.13_run_refinepeak/run_refinepeak_w_prefix.log...
 ... clear!
 Error or Warning can be found! Quit the test!
make[1]: *** [debian/rules:43: override_dh_auto_test] Error 1
make[1]: Leaving directory '/<<PKGBUILDDIR>>'
make: *** [debian/rules:18: binary] Error 2
dpkg-buildpackage: error: debian/rules binary subprocess returned exit status 2
--------------------------------------------------------------------------------

--- End Message ---
--- Begin Message --- 
Source: macs
Source-Version: 3.0.2-2
Done: Alexandre Detiste <[email protected]>

We believe that the bug you reported is fixed in the latest version of
macs, 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.
Alexandre Detiste <[email protected]> (supplier of updated macs 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, 29 Nov 2025 14:48:58 +0100
Source: macs
Architecture: source
Version: 3.0.2-2
Distribution: unstable
Urgency: medium
Maintainer: Debian Med Packaging Team 
<[email protected]>
Changed-By: Alexandre Detiste <[email protected]>
Closes: 1120217
Changes:
 macs (3.0.2-2) unstable; urgency=medium
 .
   * Team Upload
   * Fix FTBFS with new Cython (Closes: #1120217)
   * Bump Standards-Version to 4.7.2
   * Drop "Rules-Requires-Root": it is the default now
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--- End Message ---

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