Kivy: debug, understand adblog| adb log© Malik Brahimi
 0 Posted Updated Python / Kivy13 minutes read (About 1900 words)

Kivy: debug, understand adblog| adb log

Adblog cat

A standard adblog catout is adb logcat. But I do not suggest you do this since there is too much unrelated information

If you have are familiar with adb, you may add a filter-args like adb logcat *:W. But this is not the case for Kivy because most of the information is in *:I level.

As a result, pipeline adblog with grep is the best choice which could solve most of your problem. Here is my advice:

# it could cover 99% cases
adb logcat| grep -i python

# it could help you access a more elegant result which cover the most of errors.
adb logcat| grep -w "I python"

adb logcat| grep -i python could access all information containing python.
grep -w "I python" should more focus on the running log of python-android.

Python for Android Ended

This piece of information always one line a heading before the code Python for android ended. So, you can find it very easily with:

adb logcat| grep -B 1 -w "Python for android ended"

ModuleNotFoundError

  04-27 23:19:06.229 25804 25854 I python  : [INFO   ] [Logger      ] Record log in /data/user/0/org.sirfanas.filechooser.filechooser/files/app/.kivy/logs/kivy_21-04-27_3.txt
  04-27 23:19:06.229 25804 25854 I python  : [INFO   ] [Kivy        ] v1.11.1
  04-27 23:19:06.229 25804 25854 I python  : [INFO   ] [Kivy        ] Installed at "/data/user/0/org.sirfanas.filechooser.filechooser/files/app/_python_bundle/site-packages/kivy/__init__.pyc"
  04-27 23:19:06.229 25804 25854 I python  : [INFO   ] [Python      ] v3.7.5 (default, Apr 21 2021, 11:10:26)
  04-27 23:19:06.229 25804 25854 I python  : [Clang 8.0.2 (https://android.googlesource.com/toolchain/clang 40173bab62ec7462
  04-27 23:19:06.229 25804 25854 I python  : [INFO   ] [Python      ] Interpreter at "android_python"
  04-27 23:19:06.287  2208  2469 I WindowManager: Removing Window{8e822e1 u0 Splash Screen org.sirfanas.filechooser.filechooser} from AppWindowToken{8ef4121 token=Token{7fb7980 ActivityRecord{8ef4191 u0 org.sirfanas.filechooser.filechooser/org.kivy.android.PythonActivity t13316}}}
  04-27 23:19:06.390  2208  4223 I WindowManager: Animation done in AppWindowToken{8ef4121 token=Token{7fb7980 ActivityRecord{8ef4191 u0 org.sirfanas.filechooser.filechooser/org.kivy.android.PythonActivity t13316}}} isHidden:false hiddenRequested:false
  04-27 23:19:06.587 25804 25854 I python  : [INFO   ] [Factory     ] 184 symbols loaded
  04-27 23:19:06.730 25804 25854 I python  : [INFO   ] [Image       ] Providers: img_tex, img_dds, img_sdl2, img_pil, img_gif (img_ffpyplayer ignored)
  04-27 23:19:06.745 25804 25854 I python  : [INFO   ] [Text        ] Provider: sdl2
  04-27 23:19:06.761 25804 25854 I python  : [INFO   ] [Window      ] Provider: sdl2
  04-27 23:19:06.776 25804 25854 I python  : [INFO   ] [GL          ] Using the "OpenGL ES 2" graphics system
  04-27 23:19:06.777 25804 25854 I python  : [INFO   ] [GL          ] Backend used 
  04-27 23:19:06.777 25804 25854 I python  : [INFO   ] [GL          ] OpenGL version 
  04-27 23:19:06.777 25804 25854 I python  : [INFO   ] [GL          ] OpenGL vendor 
  04-27 23:19:06.777 25804 25854 I python  : [INFO   ] [GL          ] OpenGL renderer 
  04-27 23:19:06.777 25804 25854 I python  : [INFO   ] [GL          ] OpenGL parsed version: 3, 2
  04-27 23:19:06.777 25804 25854 I python  : [INFO   ] [GL          ] Texture max size <8192>
  04-27 23:19:06.777 25804 25854 I python  : [INFO   ] [GL          ] Texture max units <16>
  04-27 23:19:06.780  2208  4460 I DebugKeepScreenOn: Acquiring screen wakelock due to Window{888d929 u0 org.sirfanas.filechooser.filechooser/org.kivy.android.PythonActivity}
  04-27 23:19:06.787 25804 25854 I python  : [INFO   ] [Window      ] auto add sdl2 input provider
  04-27 23:19:06.788 25804 25854 I python  : [INFO   ] [Window      ] virtual keyboard not allowed, single mode, not docked
  04-27 23:19:06.848 25804 25854 I python  : [INFO   ] [Video       ] Provider: null(['video_ffmpeg', 'video_ffpyplayer'] ignored)
  04-27 23:19:06.849 25804 25854 I python  :  Traceback (most recent call last):
  04-27 23:19:06.849 25804 25854 I python  :    File "/media/ken/Data/Kivy/.buildozer/android/app/main.py", line 64, in 
  04-27 23:19:06.849 25804 25854 I python  :    File "/media/ken/Data/Kivy/.buildozer/android/platform/build-armeabi-v7a/build/python-installs/filechooser/kivy/app.py", line 828, in run
  04-27 23:19:06.849 25804 25854 I python  :    File "/media/ken/Data/Kivy/.buildozer/android/platform/build-armeabi-v7a/build/python-installs/filechooser/kivy/app.py", line 599, in load_kv
  04-27 23:19:06.849 25804 25854 I python  :    File "/media/ken/Data/Kivy/.buildozer/android/platform/build-armeabi-v7a/build/python-installs/filechooser/kivy/lang/builder.py", line 301, in load_file
  04-27 23:19:06.849 25804 25854 I python  :    File "/media/ken/Data/Kivy/.buildozer/android/platform/build-armeabi-v7a/build/python-installs/filechooser/kivy/lang/builder.py", line 405, in load_string
  04-27 23:19:06.850 25804 25854 I python  :    File "/media/ken/Data/Kivy/.buildozer/android/platform/build-armeabi-v7a/build/python-installs/filechooser/kivy/lang/builder.py", line 659, in _apply_rule
  04-27 23:19:06.850 25804 25854 I python  :    File "/media/ken/Data/Kivy/.buildozer/android/platform/build-armeabi-v7a/build/python-installs/filechooser/kivy/lang/builder.py", line 659, in _apply_rule
  04-27 23:19:06.850 25804 25854 I python  :    File "/media/ken/Data/Kivy/.buildozer/android/platform/build-armeabi-v7a/build/python-installs/filechooser/kivy/lang/builder.py", line 616, in _apply_rule
  04-27 23:19:06.850 25804 25854 I python  :    File "/media/ken/Data/Kivy/.buildozer/android/platform/build-armeabi-v7a/build/python-installs/filechooser/kivy/factory.py", line 142, in __getattr__
  04-27 23:19:06.850 25804 25854 I python  :    File "/media/ken/Data/Kivy/.buildozer/android/platform/build-armeabi-v7a/build/python-installs/filechooser/kivy/uix/rst.py", line 81, in 
  04-27 23:19:06.850 25804 25854 I python  :    ModuleNotFoundError: No module named 'docutils'
  04-27 23:19:06.850 25804 25854 I python  : Python for android ended.
  04-27 23:19:06.943  2208  2664 W InputDispatcher: channel '888d929 org.sirfanas.filechooser.filechooser/org.kivy.android.PythonActivity (server)' ~ Consumer closed input channel or an error occurred.  events=0x9
  04-27 23:19:06.943  2208  2664 E InputDispatcher: channel '888d929 org.sirfanas.filechooser.filechooser/org.kivy.android.PythonActivity (server)' ~ Channel is unrecoverably broken and will be disposed!

What you want to know is this: ModuleNotFoundError: No module named 'docutils'

As it’s who below, we can get the info by:

AttributeError

  04-30 16:22:14.236  6326  6417 I python  : [INFO   ] [Base        ] Start application main loop
  04-30 16:22:14.236  6326  6417 I python  : [INFO   ] [Base        ] Leaving application in progress...
  04-30 16:22:14.237  6326  6417 I python  :  Traceback (most recent call last):
  04-30 16:22:14.237  6326  6417 I python  :    File "/media/ken/Data/Kivy/.buildozer/android/app/main.py", line 111, in 
  04-30 16:22:14.237  6326  6417 I python  :    File "/media/ken/Data/Kivy/.buildozer/android/platform/build-armeabi-v7a/build/python-installs/filechooser/kivy/app.py", line 855, in run
  04-30 16:22:14.237  6326  6417 I python  :    File "/media/ken/Data/Kivy/.buildozer/android/platform/build-armeabi-v7a/build/python-installs/filechooser/kivy/base.py", line 504, in runTouchApp
  04-30 16:22:14.237  6326  6417 I python  :    File "/media/ken/Data/Kivy/.buildozer/android/platform/build-armeabi-v7a/build/python-installs/filechooser/kivy/core/window/window_sdl2.py", line 747, in mainloop
  04-30 16:22:14.237  6326  6417 I python  :    File "/media/ken/Data/Kivy/.buildozer/android/platform/build-armeabi-v7a/build/python-installs/filechooser/kivy/core/window/window_sdl2.py", line 479, in _mainloop
  04-30 16:22:14.237  6326  6417 I python  :    File "/media/ken/Data/Kivy/.buildozer/android/platform/build-armeabi-v7a/build/python-installs/filechooser/kivy/base.py", line 339, in idle
  04-30 16:22:14.238  6326  6417 I python  :    File "/media/ken/Data/Kivy/.buildozer/android/platform/build-armeabi-v7a/build/python-installs/filechooser/kivy/clock.py", line 591, in tick
  04-30 16:22:14.238  6326  6417 I python  :    File "kivy/_clock.pyx", line 384, in kivy._clock.CyClockBase._process_events
  04-30 16:22:14.238  6326  6417 I python  :    File "kivy/_clock.pyx", line 414, in kivy._clock.CyClockBase._process_events
  04-30 16:22:14.238  6326  6417 I python  :    File "kivy/_clock.pyx", line 412, in kivy._clock.CyClockBase._process_events
  04-30 16:22:14.238  6326  6417 I python  :    File "kivy/_clock.pyx", line 154, in kivy._clock.ClockEvent.tick
  04-30 16:22:14.238  6326  6417 I python  :    File "kivy/_clock.pyx", line 88, in kivy._clock.ClockEvent.get_callback
  04-30 16:22:14.239  6326  6417 I python  :    File "/media/ken/Data/Kivy/.buildozer/android/platform/build-armeabi-v7a/build/python-installs/filechooser/kivy/weakmethod.py", line 47, in __call__
  04-30 16:22:14.239  6326  6417 I python  :  AttributeError: 'WebviewLauncher' object has no attribute 'f2'
  04-30 16:22:14.239  6326  6417 I python  : Python for android ended.

Check the class WebviewLauncher and figure out what is f2 in it.

Buildozer Error

  Non-user install due to --prefix or --target option
  Created temporary directory: /tmp/pip-target-nnpo4wye
  Created temporary directory: /tmp/pip-ephem-wheel-cache-hjzhdyqg
  Created temporary directory: /tmp/pip-req-tracker-nryx6lee
  Initialized build tracking at /tmp/pip-req-tracker-nryx6lee
  Created build tracker: /tmp/pip-req-tracker-nryx6lee
  Entered build tracker: /tmp/pip-req-tracker-nryx6lee
  Created temporary directory: /tmp/pip-install-xivbs0bw
  Collecting https://github.com/kivymd/kivymd/archive/master.zip (from -r requirements.txt (line 1))
    Created temporary directory: /tmp/pip-req-build-6lx7kxss
    Created temporary directory: /tmp/pip-unpack-cr7m7azt
    Looking up "https://github.com/kivymd/kivymd/archive/master.zip" in the cache
    No cache entry available
    Starting new HTTPS connection (1): github.com:443
    Incremented Retry for (url='/kivymd/kivymd/archive/master.zip'): Retry(total=4, connect=None, read=None, redirect=None, status=None)
    WARNING: Retrying (Retry(total=4, connect=None, read=None, redirect=None, status=None)) after connection broken by 'ReadTimeoutError("HTTPSConnectionPool(host='github.com', port=443): Read timed out. (read timeout=15)")': /kivymd/kivymd/archive/master.zip
    Starting new HTTPS connection (2): github.com:443
    Incremented Retry for (url='/kivymd/kivymd/archive/master.zip'): Retry(total=3, connect=None, read=None, redirect=None, status=None)
    WARNING: Retrying (Retry(total=3, connect=None, read=None, redirect=None, status=None)) after connection broken by 'ConnectTimeoutError(, 'Connection to github.com timed out. (connect timeout=15)')': /kivymd/kivymd/archive/master.zip
    Starting new HTTPS connection (3): github.com:443
    Incremented Retry for (url='/kivymd/kivymd/archive/master.zip'): Retry(total=2, connect=None, read=None, redirect=None, status=None)
    WARNING: Retrying (Retry(total=2, connect=None, read=None, redirect=None, status=None)) after connection broken by 'ConnectTimeoutError(, 'Connection to github.com timed out. (connect timeout=15)')': /kivymd/kivymd/archive/master.zip
    Starting new HTTPS connection (4): github.com:443
    Incremented Retry for (url='/kivymd/kivymd/archive/master.zip'): Retry(total=1, connect=None, read=None, redirect=None, status=None)
    WARNING: Retrying (Retry(total=1, connect=None, read=None, redirect=None, status=None)) after connection broken by 'ProtocolError('Connection aborted.', RemoteDisconnected('Remote end closed connection without response'))': /kivymd/kivymd/archive/master.zip
    Starting new HTTPS connection (5): github.com:443
    Incremented Retry for (url='/kivymd/kivymd/archive/master.zip'): Retry(total=0, connect=None, read=None, redirect=None, status=None)
    WARNING: Retrying (Retry(total=0, connect=None, read=None, redirect=None, status=None)) after connection broken by 'ConnectTimeoutError(, 'Connection to github.com timed out. (connect timeout=15)')': /kivymd/kivymd/archive/master.zip
    Starting new HTTPS connection (6): github.com:443
  ERROR: Could not install packages due to an OSError.
  Traceback (most recent call last):
    File "/media/ken/Data/Kivy_env/Kivy2Py3.8.1MD0.104.2.dev0/.buildozer/android/platform/build-armeabi-v7a/build/venv/lib/python3.8/site-packages/pip/_vendor/urllib3/connection.py", line 169, in _new_conn
      conn = connection.create_connection(
    File "/media/ken/Data/Kivy_env/Kivy2Py3.8.1MD0.104.2.dev0/.buildozer/android/platform/build-armeabi-v7a/build/venv/lib/python3.8/site-packages/pip/_vendor/urllib3/util/connection.py", line 96, in create_connection
      raise err
    File "/media/ken/Data/Kivy_env/Kivy2Py3.8.1MD0.104.2.dev0/.buildozer/android/platform/build-armeabi-v7a/build/venv/lib/python3.8/site-packages/pip/_vendor/urllib3/util/connection.py", line 86, in create_connection
      sock.connect(sa)
  socket.timeout: timed out

  During handling of the above exception, another exception occurred:

Key error: Starting new HTTPS connection (5): github.com:443
Reason: Github didn’t response.
Resolution: Try builder again or connect your terminal to VPN.

Errors

requests
Found by adb logcat| grep -i python
Resolution:

buildozer.spec
requirements =  openssl, requests, Urllib3, chardet, certifi, idna
  05-09 19:24:20.139 23571 23629 I python  :    File "kivy/_event.pyx", line 709, in kivy._event.EventDispatcher.dispatch
  05-09 19:24:20.140 23571 23629 I python  :    File "/media/ken/Data/Kivy_env/Kivy2Py3.8.1MD0.104.2.dev0/.buildozer/android/app/libWidget/Seq.py", line 25, in align
  05-09 19:24:20.141 23571 23629 I python  :    File "/media/ken/Data/Kivy_env/Kivy2Py3.8.1MD0.104.2.dev0/.buildozer/android/app/bin/clustalo.py", line 35, in 
  05-09 19:24:20.141 23571 23629 I python  :  ModuleNotFoundError: No module named 'requests'
  05-09 19:24:20.141 23571 23629 I python  : Python for android ended.

def fasta_read(FA):
fasta = {}
with open("clusttmp/result.aln-fasta.fasta") as file_one:
    for line in file_one:
        line = line.strip()
        if not line:
            continue
        if line.startswith(">"):
            print(line)
            active_sequence_name = line[1:]
            if active_sequence_name not in fasta:
                fasta[active_sequence_name] = []
            continue
        sequence = line
        fasta[active_sequence_name].append(sequence)

print(fasta)
      return fasta

from collections import defaultdict #this will make your life simpler
f = open("clusttmp/result.aln-fasta.fasta",'r')
list=defaultdict(str)
name = ''
for line in f:
    #if your line starts with a > then it is the name of the following sequence
    if line.startswith('>'):
        name = line[1:-1]
        continue #this means skips to the next line
    #This code is only executed if it is a sequence of bases and not a name.
    list[name]+=line.strip()


d = {}

with open("clusttmp/result.aln-fasta.fasta") as f:
    for line in f:
        if len(line) > 1:
            if '%Labelinf' in line:
                key = line.strip()
                d[key] = ""
            else:
                d[key] += line.strip() + "+"

d = {key: d[key][:-1] for key in d}
print d

Kivy: debug, understand adblog| adb log

https://karobben.github.io/2021/04/30/Python/kivy_adblog/

Author

Karobben

Posted on

2021-04-30

Updated on

2024-01-11

Licensed under

#

Like this article? Support the author with

Comments

Follow

Catalogue

Tags

3D10
AI7
API3
ATAC-Seq1
Advanced Mathematics1
Aging1
Algorithm1
Align4
Android4
Antibody8
Audio1
Behavior2
BiliBili2
BioStatistics4
Biochemistry43
Biochmistry2
Bioinformatic5
Bioinformatics84
Biology49
Biopython5
Book2
CLI Tools15
Cancer1
Cell2
Cell Biology24
Chip-Seq3
Classes74
Cluster6
Conky2
Crawler5
Data14
Data Science22
Database10
Deep Learning1
Deepin1
Disk1
Distribution2
Dme3
English5
FTP1
Fasta3
Fish17
GATK1
GO3
Genome8
GitPage3
Graphviz1
HTML14
Hexo19
Hexo Plugin6
IDE3
Image10
Immunology10
Influenza4
Interoperable Plot2
Japanese1
Jupyter Notebook1
KEGG4
Kivy31
Latex1
Links1
Linux43
Logistic1
Machine Learning37
MarkDown7
MateGenome2
Math3
Matrix2
Meta-omics1
Metabloism1
Metabolism14
Mice1
Mind Plot1
Molecular Dynamic Simulation1
Mysql2
NGS35
Network5
Neuron1
Notes3
Nutrition matrix1
OpenCV17
Others3
PCA1
PDF1
PacBio1
Paper3
Papers22
Physics2
Plot65
Protein6
Protein Structure4
Proteomic1
Protocol9
PyMol2
Python131
Python Plot3
Python Seaborn1
Pyvista2
QC4
R88
R packages1
RNA-Seq26
RNN1
RasperryPi2
Regression4
Response Surface Methodology1
SNP4
Sanger Sequencing5
Scientific American1
Script7
Scripting13
Scripts2
Sequencing1
Software48
Statistic14
Structure1
Super Conductor1
Synthetic Cell1
System8
TCGA1
TUI4
Tensorflow2
Termux1
Tools5
Transfer Learning1
Translation1
Trinity2
Tulane Classes39
Tutorials1
UIUC Classes8
Urwid4
VCF1
Video1
Vocabulary3
WGCNA5
WGS5
Waque3
Web1
Wet2
WordCloud2
Writing2
Yuque3
abi1
api4
apt1
bash19
blast1
bug1
computer-vision1
deeplearning1
dock1
email2
flybase1
ggkaboom1
ggplot45
ggplot_splitbar1
git1
map5
miRNA-Seq2
nCov2
neuralnetworks1
openMM1
orc1
protein1
scATAC-Seq1
scRNA-Seq11
torch1

Subscribe for updates

Links

Recommends

Categories

×