Closed jananiharan closed 3 years ago
Hi jananiharan,
I need more information from you to figure out what happened. Could you run the commands below and posted all contents (including the commands you are running) on your screen?
ls -lh NC_012624.fna
which python3
python3 /home/janani/anaconda3/bin/isescan.py NC_012624.fna proteome hmm --nthread 2
Thanks, Xie
Hi Xie,
Here it is:
$ ls -lh NC_012624.fna
-rwxrwxr-x 1 janani janani 42K Sep 4 14:57 NC_012624.fna
$ which python3
/home/janani/anaconda3/bin/python3
$ python3 /home/janani/anaconda3/bin/isescan.py NC_012624.fna proteome hmm --nthread 2
isPredict begins at Sat Sep 5 22:52:23 2020
Traceback (most recent call last):
File "/home/janani/anaconda3/bin/isescan.py", line 70, in <module>
isPredictSingle(args4isPredictSingle)
File "/home/janani/anaconda3/bin/isescan.py", line 24, in isPredictSingle
args['nthread'])
File "/home/janani/anaconda3/bin/isPredict.py", line 203, in isPredict
dnaFiles = tools.rdDNAlist(dna_list)
AttributeError: module 'tools' has no attribute 'rdDNAlist'`
Could you run two commands and post the results?
which isescan.py
ls -lh /home/janani/anaconda3/bin/|grep tools.py
grep rdDNAlist /home/janani/anaconda3/bin/tools.py
$ which isescan.py
/home/janani/anaconda3/bin/isescan.py
$ ls -lh /home/janani/anaconda3/bin/|grep tools.py
-rwxrwxr-x 2 janani janani 77K Apr 20 12:11 tools.py
$ grep rdDNAlist /home/janani/anaconda3/bin/tools.py
def rdDNAlist(dnaListFile):
dnaFiles = rdDNAlist(filelist)
It seems everything is there. Do you or your python3 have any module with same name as tools.py? Let's check it: Could you run the commands below?
which tools.py
and
python3 test.py > path.txt
echo $PYTHONPATH >> path.txt
for p in $(cat path.txt): do find "$p" -name "tools*"; done
The content of test.py is:
import sys
for p in sys.path:
print(p)
$ which tools.py
/home/janani/anaconda3/bin/tools.py
For the second block of code, I made one small correction:
python3 test.py > path.txt
echo $PYTHONPATH >> path.txt
for p in $(cat path.txt); do find "$p" -name "tools*"; done
.. which gave me
/home/janani/bin/tools
/home/janani/bin/tools/MaxBin-2.2.5/MaxBin-2.2.5/auxiliary/idba-1.1.1/src/tools
/home/janani/bin/tools/libiconv-1.15/tools
/home/janani/bin/tools/libiconv-1.15/libcharset/tools
/home/janani/bin/tools/antismash-5.1.1/antismash/detection/genefunctions/tools.py
/home/janani/bin/tools/MCR/v901/mcr/toolbox/matlab/toolstrip
/home/janani/bin/tools/MCR/v901/mcr/toolbox/matlab/uitools/toolsmenufcn.m
/home/janani/bin/tools/MCR/v901/mcr/toolbox/matlab/appdesigner/web/release/appdesigner/css-appdesigner/toolstrip.css
/home/janani/bin/tools/MCR/v901/mcr/toolbox/matlab/appdesigner/web/release/appdesigner/images/toolstrip
/home/janani/bin/tools/MCR/v901/mcr/toolbox/matlab/appdesigner/web/release/appdesigner/images/widgets/visualfamilies/toolstrip
/home/janani/bin/tools/MCR/v901/ui/install/installservicehandler/images/toolstrip
/home/janani/bin/tools/MCR/v901/ui/install/installservicehandler/images/widgets/visualfamilies/toolstrip
/home/janani/bin/tools/MCR/v901/resources/Simulink/en/tools.xml
/home/janani/bin/tools/MCR/v901/resources/Simulink/ja_JP/tools.xml
/home/janani/bin/tools/MCR/v901/resources/MATLAB/en/toolstrip
/home/janani/bin/tools/MCR/v901/toolbox/shared/configset/+configset/+dialog/web/release/images/toolstrip
/home/janani/bin/tools/MCR/v901/toolbox/shared/configset/+configset/+dialog/web/release/images/widgets/visualfamilies/toolstrip
/home/janani/bin/tools/MCR/v901/toolbox/shared/dastudio/web/matlabeditor/release/matlabeditor/images/toolstrip
/home/janani/bin/tools/MCR/v901/toolbox/shared/dastudio/web/matlabeditor/release/matlabeditor/images/widgets/visualfamilies/toolstrip
/home/janani/bin/tools/MCR/v901/toolbox/shared/dastudio/web/webmanager/release/webmanager/images/toolstrip
/home/janani/bin/tools/MCR/v901/toolbox/shared/dastudio/web/webmanager/release/webmanager/images/widgets/visualfamilies/toolstrip
/home/janani/bin/tools/MCR/v901/toolbox/matlab/uitools/uifigureappjs/release/images/toolstrip
/home/janani/bin/tools/MCR/v901/toolbox/matlab/uitools/uifigureappjs/release/images/widgets/visualfamilies/toolstrip
/home/janani/bin/tools/MCR/v901/toolbox/matlab/codetools/uicomponents/web/datatools/inspector/release/inspector/images/toolstrip
/home/janani/bin/tools/MCR/v901/toolbox/matlab/codetools/uicomponents/web/datatools/inspector/release/inspector/images/widgets/visualfamilies/toolstrip
/home/janani/bin/tools/MCR/v901/toolbox/matlab/codetools/uicomponents/web/datatools/variableeditor/release/variableeditor/images/toolstrip
/home/janani/bin/tools/MCR/v901/toolbox/matlab/codetools/uicomponents/web/datatools/variableeditor/release/variableeditor/images/widgets/visualfamilies/toolstrip
/home/janani/bin/tools/MCR/v901/toolbox/matlab/system/editor/analyzer/release/images/toolstrip
/home/janani/bin/tools/MCR/v901/toolbox/matlab/system/editor/analyzer/release/images/widgets/visualfamilies/toolstrip
/home/janani/bin/tools/MCR/v901/toolbox/glee/web/release/images/toolstrip
/home/janani/bin/tools/MCR/v901/toolbox/glee/web/release/images/widgets/visualfamilies/toolstrip
/home/janani/bin/tools/MCR/v901/appdata/components/toolstrip_common 1452793619 8497975348203836217.xml
/home/janani/bin/tools/MCR/v901/appdata/files/toolstrip_common 1452793619_manifest.bin
/home/janani/bin/tools/MCR/v901/java/jar/toolstrip.jar
/home/janani/bin/tools/MCR/archives/toolstrip_common_1452793619.enc
/home/janani/bin/tools/MCR/archives/toolstrip_common_1452793619.xml
/home/janani/bin/tools/OrthoFinder-2.2.7/tools
/home/janani/bin/tools/autoconf-2.69/tests/tools.at
/home/janani/bin/tools/Roary-db170bf/build/bedtools2/docs/content/tools
/home/janani/bin/tools/OrthoFinder-2.2.6/tools
/home/janani/bin/tools/bin/macosx-intel/diamond-0.8.25/src/run/tools.h
/home/janani/bin/tools/bin/macosx-intel/diamond-0.8.25/src/run/tools.cpp
/home/janani/bin/tools/bbmap/pytools/tools
/home/janani/bin/tools/boost_1_67_0/libs/asio/tools
/home/janani/bin/tools/boost_1_67_0/libs/type_traits/tools
/home/janani/bin/tools/boost_1_67_0/libs/predef/tools
/home/janani/bin/tools/boost_1_67_0/libs/heap/tools
/home/janani/bin/tools/boost_1_67_0/libs/test/test/writing-test-ts/tools-under-debugger-test.cpp
/home/janani/bin/tools/boost_1_67_0/libs/test/test/writing-test-ts/tools-debuggable-test.cpp
/home/janani/bin/tools/boost_1_67_0/libs/test/tools
/home/janani/bin/tools/boost_1_67_0/libs/test/doc/html/header/boost/test/tools
/home/janani/bin/tools/boost_1_67_0/libs/test/doc/html/boost_test/testing_tools/tools_assertion_severity_level.html
/home/janani/bin/tools/boost_1_67_0/libs/regex/tools
/home/janani/bin/tools/boost_1_67_0/libs/metaparse/tools
/home/janani/bin/tools/boost_1_67_0/libs/mpl/doc/src/docutils/tools
/home/janani/bin/tools/boost_1_67_0/libs/beast/tools
/home/janani/bin/tools/boost_1_67_0/libs/config/tools
/home/janani/bin/tools/boost_1_67_0/libs/typeof/tools
/home/janani/bin/tools/boost_1_67_0/libs/filesystem/tools
/home/janani/bin/tools/boost_1_67_0/libs/multiprecision/tools
/home/janani/bin/tools/boost_1_67_0/libs/convert/doc/tools.qbk
/home/janani/bin/tools/boost_1_67_0/libs/numeric/odeint/toolset.jam.patch
/home/janani/bin/tools/boost_1_67_0/libs/locale/tools
/home/janani/bin/tools/boost_1_67_0/libs/format/tools
/home/janani/bin/tools/boost_1_67_0/libs/geometry/doc/src/docutils/tools
/home/janani/bin/tools/boost_1_67_0/libs/xpressive/tools
/home/janani/bin/tools/boost_1_67_0/libs/math/test/compile_test/tools_series_inc_test.cpp
/home/janani/bin/tools/boost_1_67_0/libs/math/test/compile_test/tools_tuple_inc_test.cpp
/home/janani/bin/tools/boost_1_67_0/libs/math/test/compile_test/tools_solve_inc_test.cpp
/home/janani/bin/tools/boost_1_67_0/libs/math/test/compile_test/tools_config_inc_test.cpp
/home/janani/bin/tools/boost_1_67_0/libs/math/test/compile_test/tools_minima_inc_test.cpp
/home/janani/bin/tools/boost_1_67_0/libs/math/test/compile_test/tools_fraction_inc_test.cpp
/home/janani/bin/tools/boost_1_67_0/libs/math/test/compile_test/tools_test_inc_test.cpp
/home/janani/bin/tools/boost_1_67_0/libs/math/test/compile_test/tools_test_data_inc_test.cpp
/home/janani/bin/tools/boost_1_67_0/libs/math/test/compile_test/tools_toms748_inc_test.cpp
/home/janani/bin/tools/boost_1_67_0/libs/math/test/compile_test/tools_polynomial_inc_test.cpp
/home/janani/bin/tools/boost_1_67_0/libs/math/test/compile_test/tools_remez_inc_test.cpp
/home/janani/bin/tools/boost_1_67_0/libs/math/test/compile_test/tools_rational_inc_test.cpp
/home/janani/bin/tools/boost_1_67_0/libs/math/test/compile_test/tools_real_cast_inc_test.cpp
/home/janani/bin/tools/boost_1_67_0/libs/math/test/compile_test/tools_precision_inc_test.cpp
/home/janani/bin/tools/boost_1_67_0/libs/math/test/compile_test/tools_stats_inc_test.cpp
/home/janani/bin/tools/boost_1_67_0/libs/math/test/compile_test/tools_roots_inc_test.cpp
/home/janani/bin/tools/boost_1_67_0/libs/math/tools
/home/janani/bin/tools/boost_1_67_0/libs/math/include_private/boost/math/tools
/home/janani/bin/tools/boost_1_67_0/tools
/home/janani/bin/tools/boost_1_67_0/tools/build/test/toolset_gcc.py
/home/janani/bin/tools/boost_1_67_0/tools/build/test/toolset_darwin.py
/home/janani/bin/tools/boost_1_67_0/tools/build/test/toolset_intel_darwin.py
/home/janani/bin/tools/boost_1_67_0/tools/build/test/toolset_clang_linux.py
/home/janani/bin/tools/boost_1_67_0/tools/build/test/toolset-mock
/home/janani/bin/tools/boost_1_67_0/tools/build/test/toolset_clang_vxworks.py
/home/janani/bin/tools/boost_1_67_0/tools/build/test/toolset_requirements.py
/home/janani/bin/tools/boost_1_67_0/tools/build/test/toolset_clang_darwin.py
/home/janani/bin/tools/boost_1_67_0/tools/build/test/toolset_defaults.py
/home/janani/bin/tools/boost_1_67_0/tools/build/doc/src/tools.adoc
/home/janani/bin/tools/boost_1_67_0/tools/build/src/build/toolset.jam
/home/janani/bin/tools/boost_1_67_0/tools/build/src/build/toolset.py
/home/janani/bin/tools/boost_1_67_0/tools/build/src/tools
/home/janani/bin/tools/boost_1_67_0/tools/build/src/tools/features/toolset-feature.jam
/home/janani/bin/tools/boost_1_67_0/boost/test/tools
/home/janani/bin/tools/boost_1_67_0/boost/msm/back/tools.hpp
/home/janani/bin/tools/boost_1_67_0/boost/math/tools
/home/janani/bin/tools/boost_1_67_0/doc/html/tools.html
/home/janani/bin/tools/get_homologues-x86_64-20190102/bin/macosx-intel/diamond-0.8.25/src/run/tools.h
/home/janani/bin/tools/get_homologues-x86_64-20190102/bin/macosx-intel/diamond-0.8.25/src/run/tools.cpp
/home/janani/bin/tools/R-3.5.1/tests/Examples/tools-Ex.Rout.save
/home/janani/bin/tools/R-3.5.1/tools
/home/janani/bin/tools/R-3.5.1/src/library/translations/inst/ko/LC_MESSAGES/tools.mo
/home/janani/bin/tools/R-3.5.1/src/library/translations/inst/ja/LC_MESSAGES/tools.mo
/home/janani/bin/tools/R-3.5.1/src/library/translations/inst/pt_BR/LC_MESSAGES/tools.mo
/home/janani/bin/tools/R-3.5.1/src/library/translations/inst/ru/LC_MESSAGES/tools.mo
/home/janani/bin/tools/R-3.5.1/src/library/translations/inst/en@quot/LC_MESSAGES/tools.mo
/home/janani/bin/tools/R-3.5.1/src/library/translations/inst/da/LC_MESSAGES/tools.mo
/home/janani/bin/tools/R-3.5.1/src/library/translations/inst/de/LC_MESSAGES/tools.mo
/home/janani/bin/tools/R-3.5.1/src/library/translations/inst/it/LC_MESSAGES/tools.mo
/home/janani/bin/tools/R-3.5.1/src/library/translations/inst/fr/LC_MESSAGES/tools.mo
/home/janani/bin/tools/R-3.5.1/src/library/translations/inst/pl/LC_MESSAGES/tools.mo
/home/janani/bin/tools/R-3.5.1/src/library/translations/inst/zh_CN/LC_MESSAGES/tools.mo
/home/janani/bin/tools/R-3.5.1/src/library/tools
/home/janani/bin/tools/R-3.5.1/src/library/tools/po/tools.pot
/home/janani/bin/tools/R-3.5.1/src/library/tools/R/tools-deprecated.R
/home/janani/bin/tools/R-3.5.1/src/library/tools/R/tools-defunct.R
/home/janani/bin/tools/R-3.5.1/src/library/tools/src/tools.h
/home/janani/bin/tools/R-3.5.1/src/library/tools/man/tools-deprecated.Rd
/home/janani/bin/tools/R-3.5.1/src/library/tools/man/tools-defunct.Rd
/home/janani/bin/tools/R-3.5.1/src/library/tools/man/tools-package.Rd
/home/janani/bin/tools/megahit/tools
/home/janani/anaconda3/lib/python3.7/site-packages/bokeh/models/tools.py
/home/janani/anaconda3/lib/python3.7/site-packages/bokeh/models/__pycache__/tools.cpython-37.pyc
/home/janani/anaconda3/lib/python3.7/site-packages/bokeh/server/static/js/lib/models/tools
/home/janani/anaconda3/lib/python3.7/site-packages/bokeh/server/static/js/types/models/tools
/home/janani/anaconda3/lib/python3.7/site-packages/nose/tools
/home/janani/anaconda3/lib/python3.7/site-packages/IPython/testing/tools.py
/home/janani/anaconda3/lib/python3.7/site-packages/IPython/testing/__pycache__/tools.cpython-37.pyc
/home/janani/anaconda3/lib/python3.7/site-packages/statsmodels/tools
/home/janani/anaconda3/lib/python3.7/site-packages/statsmodels/tools/tools.py
/home/janani/anaconda3/lib/python3.7/site-packages/statsmodels/tools/__pycache__/tools.cpython-37.pyc
/home/janani/anaconda3/lib/python3.7/site-packages/statsmodels/sandbox/tools
/home/janani/anaconda3/lib/python3.7/site-packages/statsmodels/sandbox/tools/tools_pca.py
/home/janani/anaconda3/lib/python3.7/site-packages/statsmodels/sandbox/tools/__pycache__/tools_pca.cpython-37.pyc
/home/janani/anaconda3/lib/python3.7/site-packages/statsmodels/sandbox/regression/tools.py
/home/janani/anaconda3/lib/python3.7/site-packages/statsmodels/sandbox/regression/__pycache__/tools.cpython-37.pyc
/home/janani/anaconda3/lib/python3.7/site-packages/statsmodels/tsa/arima/tools.py
/home/janani/anaconda3/lib/python3.7/site-packages/statsmodels/tsa/arima/__pycache__/tools.cpython-37.pyc
/home/janani/anaconda3/lib/python3.7/site-packages/statsmodels/tsa/statespace/tools.py
/home/janani/anaconda3/lib/python3.7/site-packages/statsmodels/tsa/statespace/__pycache__/tools.cpython-37.pyc
/home/janani/anaconda3/lib/python3.7/site-packages/notebook/bundler/tools.py
/home/janani/anaconda3/lib/python3.7/site-packages/notebook/bundler/__pycache__/tools.cpython-37.pyc
/home/janani/anaconda3/lib/python3.7/site-packages/sympy/strategies/branch/tools.py
/home/janani/anaconda3/lib/python3.7/site-packages/sympy/strategies/branch/__pycache__/tools.cpython-37.pyc
/home/janani/anaconda3/lib/python3.7/site-packages/sympy/strategies/tools.py
/home/janani/anaconda3/lib/python3.7/site-packages/sympy/strategies/__pycache__/tools.cpython-37.pyc
/home/janani/anaconda3/lib/python3.7/site-packages/pandas/tests/tools
/home/janani/anaconda3/lib/python3.7/site-packages/pandas/plotting/_matplotlib/tools.py
/home/janani/anaconda3/lib/python3.7/site-packages/pandas/plotting/_matplotlib/__pycache__/tools.cpython-37.pyc
/home/janani/anaconda3/lib/python3.7/site-packages/pandas/core/tools
/home/janani/anaconda3/pkgs/bokeh-2.2.1-py37hc8dfbb8_0/lib/python3.7/site-packages/bokeh/models/tools.py
/home/janani/anaconda3/pkgs/bokeh-2.2.1-py37hc8dfbb8_0/lib/python3.7/site-packages/bokeh/models/__pycache__/tools.cpython-37.pyc
/home/janani/anaconda3/pkgs/bokeh-2.2.1-py37hc8dfbb8_0/lib/python3.7/site-packages/bokeh/server/static/js/lib/models/tools
/home/janani/anaconda3/pkgs/bokeh-2.2.1-py37hc8dfbb8_0/lib/python3.7/site-packages/bokeh/server/static/js/types/models/tools
/home/janani/anaconda3/pkgs/pandas-1.1.1-py37h3340039_0/lib/python3.7/site-packages/pandas/tests/tools
/home/janani/anaconda3/pkgs/pandas-1.1.1-py37h3340039_0/lib/python3.7/site-packages/pandas/plotting/_matplotlib/tools.py
/home/janani/anaconda3/pkgs/pandas-1.1.1-py37h3340039_0/lib/python3.7/site-packages/pandas/plotting/_matplotlib/__pycache__/tools.cpython-37.pyc
/home/janani/anaconda3/pkgs/pandas-1.1.1-py37h3340039_0/lib/python3.7/site-packages/pandas/core/tools
/home/janani/anaconda3/pkgs/qt-5.9.7-h5867ecd_1/qml/QtQuick/Controls.2/designer/images/toolseparator-icon.png
/home/janani/anaconda3/pkgs/qt-5.9.7-h5867ecd_1/qml/QtQuick/Controls.2/designer/images/toolseparator-icon16.png
/home/janani/anaconda3/pkgs/qt-5.9.7-h5867ecd_1/qml/QtQuick/Controls.2/designer/images/toolseparator-icon16@2x.png
/home/janani/anaconda3/pkgs/qt-5.9.7-h5867ecd_1/qml/QtQuick/Controls.2/designer/images/toolseparator-icon@2x.png
/home/janani/anaconda3/pkgs/orthofinder-2.3.8-1/bin/tools
/home/janani/anaconda3/pkgs/libboost-1.67.0-h46d08c1_4/share/boost-build/src/build/toolset.jam
/home/janani/anaconda3/pkgs/libboost-1.67.0-h46d08c1_4/share/boost-build/src/build/toolset.py
/home/janani/anaconda3/pkgs/libboost-1.67.0-h46d08c1_4/share/boost-build/src/tools
/home/janani/anaconda3/pkgs/libboost-1.67.0-h46d08c1_4/share/boost-build/src/tools/features/toolset-feature.jam
/home/janani/anaconda3/pkgs/libboost-1.67.0-h46d08c1_4/include/boost/test/tools
/home/janani/anaconda3/pkgs/libboost-1.67.0-h46d08c1_4/include/boost/msm/back/tools.hpp
/home/janani/anaconda3/pkgs/libboost-1.67.0-h46d08c1_4/include/boost/math/tools
/home/janani/anaconda3/pkgs/qt-5.9.7-h52cfd70_2/qml/QtQuick/Controls.2/designer/images/toolseparator-icon.png
/home/janani/anaconda3/pkgs/qt-5.9.7-h52cfd70_2/qml/QtQuick/Controls.2/designer/images/toolseparator-icon16.png
/home/janani/anaconda3/pkgs/qt-5.9.7-h52cfd70_2/qml/QtQuick/Controls.2/designer/images/toolseparator-icon16@2x.png
/home/janani/anaconda3/pkgs/qt-5.9.7-h52cfd70_2/qml/QtQuick/Controls.2/designer/images/toolseparator-icon@2x.png
/home/janani/anaconda3/pkgs/notebook-6.0.0-py37_0/lib/python3.7/site-packages/notebook/bundler/tools.py
/home/janani/anaconda3/pkgs/notebook-6.0.0-py37_0/lib/python3.7/site-packages/notebook/bundler/__pycache__/tools.cpython-37.pyc
/home/janani/anaconda3/pkgs/statsmodels-0.10.0-py37hdd07704_0/lib/python3.7/site-packages/statsmodels/tools
/home/janani/anaconda3/pkgs/statsmodels-0.10.0-py37hdd07704_0/lib/python3.7/site-packages/statsmodels/tools/tools.py
/home/janani/anaconda3/pkgs/statsmodels-0.10.0-py37hdd07704_0/lib/python3.7/site-packages/statsmodels/tools/__pycache__/tools.cpython-37.pyc
/home/janani/anaconda3/pkgs/statsmodels-0.10.0-py37hdd07704_0/lib/python3.7/site-packages/statsmodels/sandbox/tools
/home/janani/anaconda3/pkgs/statsmodels-0.10.0-py37hdd07704_0/lib/python3.7/site-packages/statsmodels/sandbox/tools/tools_pca.py
/home/janani/anaconda3/pkgs/statsmodels-0.10.0-py37hdd07704_0/lib/python3.7/site-packages/statsmodels/sandbox/tools/__pycache__/tools_pca.cpython-37.pyc
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find: ‘/home/janani/anaconda3/lib/python37.zip’: No such file or directory
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/home/janani/anaconda3/lib/python3.7/site-packages/pandas/tests/tools
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/home/janani/anaconda3/lib/python3.7/site-packages/pandas/plotting/_matplotlib/__pycache__/tools.cpython-37.pyc
/home/janani/anaconda3/lib/python3.7/site-packages/pandas/core/tools```
Hi! Checking in to see if you have any ideas on resolving this issue? Or is it something specific to my workspace that you haven't encountered before?
I am not sure of why it happened. It might be that your python3 import the tools module other than the tools.py shipped with ISEScan. Maybe you can rename the tools.py module shipped with ISEScan by doing the following:
cd /home/janani/anaconda3/bin/
mv tools.py isescantools.py
sed -i 's/itertools/itertool_s/g' is_analysis.py isPredict.py pred.py
sed -i 's/tools/isescantools/g' is_analysis.py isPredict.py pred.py
sed -i 's/itertool_s/itertools/g' is_analysis.py isPredict.py pred.py
Then run isescan as before to see if it solves your problem.
Xie
This fixes the problem! Thanks so much.
I get the following error with the test data:
isescan.py --nthread 2 NC_012624.fna proteome hmm
I did a conda install and all paths seem to be OK. Thanks in advance!