[MSNoise] Problem with database conection.
Oscar Alberto Castro Artola
oscar.cas.art at gmail.com
Mon Jun 19 19:07:52 UTC 2017
Dear Thomas,
I've tried:
*$ sudo pip uninstall msnoise *
*sudo: pip: command not found*
so I did it like root:
*pip install msnoise -U*
and everything looks fine. Then I did:
*msnoise upgrade_db*
and when I try to continue calculating the MWCS, this happens:
*$ msnoise -t 20 compute_mwcs*
*/usr/local/anaconda/lib/python2.7/site-packages/pandas/core/computation/__init__.py:18:
UserWarning: The installed version of numexpr 2.3.1 is not supported in
pandas and will be not be used*
*The minimum supported version is 2.4.6*
* ver=ver, min_ver=_MIN_NUMEXPR_VERSION), UserWarning)*
*2017-06-19 13:59:08 [INFO] *** Starting: Compute MWCS ****
*2017-06-19 13:59:08 [DEBUG] Ready to compute*
*2017-06-19 13:59:09 [INFO] There are MWCS jobs for some days to recompute
for IG.MOIG:IG.TLIG*
*2017-06-19 13:59:09 [INFO] *** Starting: Compute MWCS ****
*2017-06-19 13:59:09 [DEBUG] Processing MWCS for: IG_MOIG_IG_TLIG.ZZ.01 -
2009-10-16 - 10 days*
*Intel MKL FATAL ERROR: Cannot load libmkl_avx.so or libmkl_def.so.*
*2017-06-19 13:59:09 [DEBUG] Ready to compute*
*2017-06-19 13:59:10 [INFO] There are MWCS jobs for some days to recompute
for IG.OXIG:IG.TLIG*
*2017-06-19 13:59:10 [INFO] *** Starting: Compute MWCS ****
*2017-06-19 13:59:10 [DEBUG] Processing MWCS for: IG_OXIG_IG_TLIG.ZZ.01 -
2009-10-16 - 10 days*
*Intel MKL FATAL ERROR: Cannot load libmkl_avx.so or libmkl_def.so.*
*2017-06-19 13:59:10 [DEBUG] Ready to compute*
*2017-06-19 13:59:11 [INFO] There are MWCS jobs for some days to recompute
for IG.PLIG:IG.TLIG*
*2017-06-19 13:59:11 [INFO] *** Starting: Compute MWCS ****
*2017-06-19 13:59:11 [DEBUG] Processing MWCS for: IG_PLIG_IG_TLIG.ZZ.01 -
2009-10-16 - 10 days*
*Intel MKL FATAL ERROR: Cannot load libmkl_avx.so or libmkl_def.so.*
*2017-06-19 13:59:11 [DEBUG] Ready to compute*
*2017-06-19 13:59:12 [INFO] There are MWCS jobs for some days to recompute
for IG.PNIG:IG.TLIG*
*2017-06-19 13:59:12 [DEBUG] Processing MWCS for: IG_PNIG_IG_TLIG.ZZ.01 -
2009-10-16 - 10 days*
*Intel MKL FATAL ERROR: Cannot load libmkl_avx.so or libmkl_def.so.*
*2017-06-19 13:59:12 [INFO] *** Starting: Compute MWCS ****
*2017-06-19 13:59:12 [DEBUG] Ready to compute*
*2017-06-19 13:59:13 [INFO] There are MWCS jobs for some days to recompute
for IG.TLIG:IG.YAIG*
*2017-06-19 13:59:13 [INFO] *** Starting: Compute MWCS ****
*2017-06-19 13:59:13 [DEBUG] Processing MWCS for: IG_TLIG_IG_YAIG.ZZ.01 -
2009-10-16 - 10 days*
*Intel MKL FATAL ERROR: Cannot load libmkl_avx.so or libmkl_def.so.*
*2017-06-19 13:59:13 [DEBUG] Ready to compute*
*2017-06-19 13:59:14 [INFO] *** Starting: Compute MWCS ****
*2017-06-19 13:59:14 [INFO] There are MWCS jobs for some days to recompute
for IG.TLIG:IG.ZIIG*
*2017-06-19 13:59:14 [DEBUG] Processing MWCS for: IG_TLIG_IG_ZIIG.ZZ.01 -
2009-10-16 - 10 days*
*Intel MKL FATAL ERROR: Cannot load libmkl_avx.so or libmkl_def.so.*
*2017-06-19 13:59:14 [DEBUG] Ready to compute*
*2017-06-19 13:59:15 [INFO] There are MWCS jobs for some days to recompute
for IG.HLIG:IG.MEIG*
*2017-06-19 13:59:15 [INFO] *** Starting: Compute MWCS ****
*2017-06-19 13:59:15 [DEBUG] Processing MWCS for: IG_HLIG_IG_MEIG.ZZ.01 -
2009-12-09 - 10 days*
*Intel MKL FATAL ERROR: Cannot load libmkl_avx.so or libmkl_def.so.*
*2017-06-19 13:59:15 [DEBUG] Ready to compute*
*2017-06-19 13:59:16 [INFO] There are MWCS jobs for some days to recompute
for IG.HLIG:IG.MMIG*
*2017-06-19 13:59:16 [DEBUG] Processing MWCS for: IG_HLIG_IG_MMIG.ZZ.01 -
2009-12-09 - 10 days*
*2017-06-19 13:59:16 [INFO] *** Starting: Compute MWCS ****
*Intel MKL FATAL ERROR: Cannot load libmkl_avx.so or libmkl_def.so.*
*2017-06-19 13:59:16 [DEBUG] Ready to compute*
*2017-06-19 13:59:17 [INFO] There are MWCS jobs for some days to recompute
for IG.HLIG:IG.MOIG*
*2017-06-19 13:59:17 [DEBUG] Processing MWCS for: IG_HLIG_IG_MOIG.ZZ.01 -
2009-12-09 - 10 days*
*Intel MKL FATAL ERROR: Cannot load libmkl_avx.so or libmkl_def.so.*
*2017-06-19 13:59:17 [INFO] *** Starting: Compute MWCS ****
*2017-06-19 13:59:17 [DEBUG] Ready to compute*
*2017-06-19 13:59:18 [INFO] There are MWCS jobs for some days to recompute
for IG.HLIG:IG.OXIG*
*2017-06-19 13:59:18 [DEBUG] Processing MWCS for: IG_HLIG_IG_OXIG.ZZ.01 -
2009-12-09 - 10 days*
*Intel MKL FATAL ERROR: Cannot load libmkl_avx.so or libmkl_def.so.*
*2017-06-19 13:59:18 [INFO] *** Starting: Compute MWCS ****
*2017-06-19 13:59:18 [DEBUG] Ready to compute*
*2017-06-19 13:59:19 [INFO] There are MWCS jobs for some days to recompute
for IG.HLIG:IG.PLIG*
*2017-06-19 13:59:19 [DEBUG] Processing MWCS for: IG_HLIG_IG_PLIG.ZZ.01 -
2009-12-09 - 10 days*
*Intel MKL FATAL ERROR: Cannot load libmkl_avx.so or libmkl_def.so.*
*2017-06-19 13:59:19 [INFO] *** Starting: Compute MWCS ****
*2017-06-19 13:59:19 [DEBUG] Ready to compute*
*2017-06-19 13:59:20 [INFO] There are MWCS jobs for some days to recompute
for IG.HLIG:IG.PNIG*
*2017-06-19 13:59:20 [INFO] *** Starting: Compute MWCS ****
*2017-06-19 13:59:20 [DEBUG] Processing MWCS for: IG_HLIG_IG_PNIG.ZZ.01 -
2009-12-09 - 10 days*
*Intel MKL FATAL ERROR: Cannot load libmkl_avx.so or libmkl_def.so.*
*2017-06-19 13:59:20 [DEBUG] Ready to compute*
*2017-06-19 13:59:21 [INFO] There are MWCS jobs for some days to recompute
for IG.HLIG:IG.TLIG*
*2017-06-19 13:59:21 [DEBUG] Processing MWCS for: IG_HLIG_IG_TLIG.ZZ.01 -
2009-12-09 - 10 days*
*Intel MKL FATAL ERROR: Cannot load libmkl_avx.so or libmkl_def.so.*
*2017-06-19 13:59:21 [INFO] *** Starting: Compute MWCS ****
*2017-06-19 13:59:21 [DEBUG] Ready to compute*
*2017-06-19 13:59:22 [INFO] There are MWCS jobs for some days to recompute
for IG.HLIG:IG.YAIG*
*2017-06-19 13:59:22 [INFO] *** Starting: Compute MWCS ****
*2017-06-19 13:59:22 [DEBUG] Processing MWCS for: IG_HLIG_IG_YAIG.ZZ.01 -
2009-12-09 - 10 days*
*Intel MKL FATAL ERROR: Cannot load libmkl_avx.so or libmkl_def.so.*
*2017-06-19 13:59:22 [DEBUG] Ready to compute*
*2017-06-19 13:59:23 [INFO] There are MWCS jobs for some days to recompute
for IG.HLIG:IG.ZIIG*
*2017-06-19 13:59:23 [INFO] *** Starting: Compute MWCS ****
*2017-06-19 13:59:23 [DEBUG] Processing MWCS for: IG_HLIG_IG_ZIIG.ZZ.01 -
2009-12-09 - 10 days*
*Intel MKL FATAL ERROR: Cannot load libmkl_avx.so or libmkl_def.so.*
*2017-06-19 13:59:23 [DEBUG] Ready to compute*
*2017-06-19 13:59:23 [INFO] *** Finished: Compute MWCS ****
*2017-06-19 13:59:24 [INFO] *** Starting: Compute MWCS ****
*2017-06-19 13:59:24 [DEBUG] Ready to compute*
*2017-06-19 13:59:24 [INFO] *** Finished: Compute MWCS ****
*2017-06-19 13:59:25 [INFO] *** Starting: Compute MWCS ****
*2017-06-19 13:59:25 [DEBUG] Ready to compute*
*2017-06-19 13:59:25 [INFO] *** Finished: Compute MWCS ****
*2017-06-19 13:59:26 [INFO] *** Starting: Compute MWCS ****
*2017-06-19 13:59:26 [DEBUG] Ready to compute*
*2017-06-19 13:59:26 [INFO] *** Finished: Compute MWCS ****
*2017-06-19 13:59:27 [INFO] *** Starting: Compute MWCS ****
*2017-06-19 13:59:27 [DEBUG] Ready to compute*
*2017-06-19 13:59:27 [INFO] *** Finished: Compute MWCS ****
Thanks for all your help!
Greetings,
Oscar
On Fri, Jun 16, 2017 at 1:31 AM, Thomas Lecocq <thomas.lecocq at oma.be> wrote:
> Oscar,
>
> it looks like you installed python with administrative rights:
>
> try
>
> sudo pip uninstall msnoise
>
> sudo pip install msnoise
>
>
> Thomas
>
>
> Le 15/06/2017 à 21:25, Oscar Alberto Castro Artola a écrit :
>
>> Dear Thomas,
>>
>> I tried *pip uninstall msnoise*, and I get this:
>>
>>
>> Uninstalling msnoise-0+unknown:
>> /usr/local/anaconda/bin/msnoise
>>
>> /usr/local/anaconda/lib/python2.7/site-packages/msnoise-0+
>> unknown-py2.7.egg-info
>> /usr/local/anaconda/lib/python2.7/site-packages/msnoise/MWCS.py
>> /usr/local/anaconda/lib/python2.7/site-packages/msnoise/MWCS.pyc
>> /usr/local/anaconda/lib/python2.7/site-packages/msnoise/__init__.py
>> /usr/local/anaconda/lib/python2.7/site-packages/msnoise/__init__.pyc
>> /usr/local/anaconda/lib/python2.7/site-packages/msnoise/_version.py
>> /usr/local/anaconda/lib/python2.7/site-packages/msnoise/_version.pyc
>> /usr/local/anaconda/lib/python2.7/site-packages/msnoise/api.py
>> /usr/local/anaconda/lib/python2.7/site-packages/msnoise/api.pyc
>> /usr/local/anaconda/lib/python2.7/site-packages/msnoise/bugreport.py
>> /usr/local/anaconda/lib/python2.7/site-packages/msnoise/bugreport.pyc
>> /usr/local/anaconda/lib/python2.7/site-packages/msnoise/
>> data_structures.py
>>
>> /usr/local/anaconda/lib/python2.7/site-packages/msnoise/
>> data_structures.pyc
>> /usr/local/anaconda/lib/python2.7/site-packages/msnoise/default.py
>> /usr/local/anaconda/lib/python2.7/site-packages/msnoise/default.pyc
>> /usr/local/anaconda/lib/python2.7/site-packages/msnoise/
>> msnoise_admin.py
>> /usr/local/anaconda/lib/python2.7/site-packages/msnoise/
>> msnoise_admin.pyc
>>
>> /usr/local/anaconda/lib/python2.7/site-packages/msnoise/
>> msnoise_table_def.py
>>
>> /usr/local/anaconda/lib/python2.7/site-packages/msnoise/
>> msnoise_table_def.pyc
>> /usr/local/anaconda/lib/python2.7/site-packages/msnoise/myCorr.py
>> /usr/local/anaconda/lib/python2.7/site-packages/msnoise/myCorr.pyc
>> /usr/local/anaconda/lib/python2.7/site-packages/msnoise/
>> plots/__init__.py
>> /usr/local/anaconda/lib/python2.7/site-packages/msnoise/
>> plots/__init__.pyc
>> /usr/local/anaconda/lib/python2.7/site-packages/msnoise/
>> plots/ccftime.py
>> /usr/local/anaconda/lib/python2.7/site-packages/msnoise/
>> plots/ccftime.pyc
>>
>> /usr/local/anaconda/lib/python2.7/site-packages/msnoise/
>> plots/data_availability.py
>>
>> /usr/local/anaconda/lib/python2.7/site-packages/msnoise/
>> plots/data_availability.pyc
>> /usr/local/anaconda/lib/python2.7/site-packages/msnoise/
>> plots/distance.py
>> /usr/local/anaconda/lib/python2.7/site-packages/msnoise/
>> plots/distance.pyc
>> /usr/local/anaconda/lib/python2.7/site-packages/msnoise/plots/dtt.py
>> /usr/local/anaconda/lib/python2.7/site-packages/msnoise/plots/dtt.pyc
>> /usr/local/anaconda/lib/python2.7/site-packages/msnoise/plots/dvv.py
>> /usr/local/anaconda/lib/python2.7/site-packages/msnoise/plots/dvv.pyc
>>
>> /usr/local/anaconda/lib/python2.7/site-packages/msnoise/
>> plots/interferogram.py
>>
>> /usr/local/anaconda/lib/python2.7/site-packages/msnoise/
>> plots/interferogram.pyc
>> /usr/local/anaconda/lib/python2.7/site-packages/msnoise/plots/mwcs.py
>> /usr/local/anaconda/lib/python2.7/site-packages/msnoise/plots/mwcs.pyc
>>
>> /usr/local/anaconda/lib/python2.7/site-packages/msnoise/
>> plots/station_map.py
>>
>> /usr/local/anaconda/lib/python2.7/site-packages/msnoise/
>> plots/station_map.pyc
>> /usr/local/anaconda/lib/python2.7/site-packages/msnoise/
>> plots/timing.py
>> /usr/local/anaconda/lib/python2.7/site-packages/msnoise/
>> plots/timing.pyc
>> /usr/local/anaconda/lib/python2.7/site-packages/msnoise/
>> s000installer.py
>> /usr/local/anaconda/lib/python2.7/site-packages/msnoise/
>> s000installer.pyc
>>
>> /usr/local/anaconda/lib/python2.7/site-packages/msnoise/
>> s001configurator.py
>>
>> /usr/local/anaconda/lib/python2.7/site-packages/msnoise/
>> s001configurator.pyc
>>
>> /usr/local/anaconda/lib/python2.7/site-packages/msnoise/
>> s002populate_station_table.py
>>
>> /usr/local/anaconda/lib/python2.7/site-packages/msnoise/
>> s002populate_station_table.pyc
>> /usr/local/anaconda/lib/python2.7/site-packages/msnoise/
>> s01scan_archive.py
>>
>> /usr/local/anaconda/lib/python2.7/site-packages/msnoise/
>> s01scan_archive.pyc
>> /usr/local/anaconda/lib/python2.7/site-packages/msnoise/s02new_jobs.py
>> /usr/local/anaconda/lib/python2.7/site-packages/msnoise/
>> s02new_jobs.pyc
>> /usr/local/anaconda/lib/python2.7/site-packages/msnoise/
>> s03compute_cc.py
>> /usr/local/anaconda/lib/python2.7/site-packages/msnoise/
>> s03compute_cc.pyc
>> /usr/local/anaconda/lib/python2.7/site-packages/msnoise/s04stack.py
>> /usr/local/anaconda/lib/python2.7/site-packages/msnoise/s04stack.pyc
>> /usr/local/anaconda/lib/python2.7/site-packages/msnoise/
>> s05compute_mwcs.py
>>
>> /usr/local/anaconda/lib/python2.7/site-packages/msnoise/
>> s05compute_mwcs.pyc
>> /usr/local/anaconda/lib/python2.7/site-packages/msnoise/
>> s06compute_dtt.py
>> /usr/local/anaconda/lib/python2.7/site-packages/msnoise/
>> s06compute_dtt.pyc
>>
>> /usr/local/anaconda/lib/python2.7/site-packages/msnoise/
>> scripts/__init__.py
>>
>> /usr/local/anaconda/lib/python2.7/site-packages/msnoise/
>> scripts/__init__.pyc
>> /usr/local/anaconda/lib/python2.7/site-packages/msnoise/
>> scripts/msnoise.py
>>
>> /usr/local/anaconda/lib/python2.7/site-packages/msnoise/
>> scripts/msnoise.pyc
>>
>> /usr/local/anaconda/lib/python2.7/site-packages/msnoise/
>> static/admin/msnoise.css
>>
>> /usr/local/anaconda/lib/python2.7/site-packages/msnoise/
>> static/admin/msnoise.png
>>
>> /usr/local/anaconda/lib/python2.7/site-packages/msnoise/
>> static/admin/style.css
>> /usr/local/anaconda/lib/python2.7/site-packages/msnoise/stretch.py
>> /usr/local/anaconda/lib/python2.7/site-packages/msnoise/stretch.pyc
>>
>> /usr/local/anaconda/lib/python2.7/site-packages/msnoise/
>> templates/admin/about.html
>>
>> /usr/local/anaconda/lib/python2.7/site-packages/msnoise/
>> templates/admin/bugreport.html
>>
>> /usr/local/anaconda/lib/python2.7/site-packages/msnoise/
>> templates/admin/data_availability.html
>>
>> /usr/local/anaconda/lib/python2.7/site-packages/msnoise/
>> templates/admin/index.html
>>
>> /usr/local/anaconda/lib/python2.7/site-packages/msnoise/
>> templates/admin/interferogram.html
>>
>> /usr/local/anaconda/lib/python2.7/site-packages/msnoise/
>> templates/admin/master.html
>>
>> /usr/local/anaconda/lib/python2.7/site-packages/msnoise/
>> templates/admin/model/edit-config.html
>>
>> /usr/local/anaconda/lib/python2.7/site-packages/msnoise/
>> templates/admin/results.html
>>
>> /usr/local/anaconda/lib/python2.7/site-packages/msnoise/
>> templates/index.html
>> /usr/local/anaconda/lib/python2.7/site-packages/msnoise/
>> test/__init__.py
>> /usr/local/anaconda/lib/python2.7/site-packages/msnoise/
>> test/__init__.pyc
>>
>> /usr/local/anaconda/lib/python2.7/site-packages/msnoise/
>> test/data/2010/UV05/HHZ.D/YA.UV05.00.HHZ.D.2010.244
>>
>> /usr/local/anaconda/lib/python2.7/site-packages/msnoise/
>> test/data/2010/UV06/HHZ.D/YA.UV06.00.HHZ.D.2010.244
>>
>> /usr/local/anaconda/lib/python2.7/site-packages/msnoise/
>> test/data/2010/UV10/HHZ.D/YA.UV10.00.HHZ.D.2010.244
>>
>> /usr/local/anaconda/lib/python2.7/site-packages/msnoise/
>> test/extra/stations.csv
>> /usr/local/anaconda/lib/python2.7/site-packages/msnoise/
>> test/run_tests.sh
>> /usr/local/anaconda/lib/python2.7/site-packages/msnoise/test/tests.py
>> /usr/local/anaconda/lib/python2.7/site-packages/msnoise/test/tests.pyc
>> /usr/local/anaconda/lib/python2.7/site-packages/msnoise/whiten.py
>> /usr/local/anaconda/lib/python2.7/site-packages/msnoise/whiten.pyc
>> /usr/local/anaconda/lib/python2.7/site-packages/msnoise/whitenAM.py
>> /usr/local/anaconda/lib/python2.7/site-packages/msnoise/whitenAM.pyc
>> Proceed (y/n)? y
>> Exception:
>> Traceback (most recent call last):
>> File
>> "/usr/local/anaconda/lib/python2.7/site-packages/pip/basecommand.py",
>> line
>> 215, in main
>> status = self.run(options, args)
>> File
>> "/usr/local/anaconda/lib/python2.7/site-packages/pip/command
>> s/uninstall.py",
>> line 76, in run
>> requirement_set.uninstall(auto_confirm=options.yes)
>> File
>> "/usr/local/anaconda/lib/python2.7/site-packages/pip/req/req_set.py",
>> line
>> 346, in uninstall
>> req.uninstall(auto_confirm=auto_confirm)
>> File
>> "/usr/local/anaconda/lib/python2.7/site-packages/pip/req/req_install.py",
>> line 754, in uninstall
>> paths_to_remove.remove(auto_confirm)
>> File
>> "/usr/local/anaconda/lib/python2.7/site-packages/pip/req/
>> req_uninstall.py",
>> line 115, in remove
>> renames(path, new_path)
>> File
>> "/usr/local/anaconda/lib/python2.7/site-packages/pip/utils/__init__.py",
>> line 267, in renames
>> shutil.move(old, new)
>> File "/usr/local/anaconda/lib/python2.7/shutil.py", line 303, in move
>> os.unlink(src)
>> OSError: [Errno 13] Permission denied: '/usr/local/anaconda/bin/msnoise'
>>
>> Again, thanks for your help!
>>
>> Cheers,
>>
>> Oscar
>>
>> On Thu, Jun 15, 2017 at 11:43 AM, Thomas Lecocq <
>> Thomas.Lecocq at seismology.be
>>
>>> wrote:
>>> Oscar,
>>>
>>> just try:
>>>
>>> pip uninstall msnoise
>>>
>>> and then
>>>
>>> pip install msnoise
>>>
>>>
>>> Cheers,
>>>
>>> Tom
>>>
>>>
>>> On 15/06/2017 18:10, Oscar Alberto Castro Artola wrote:
>>>
>>> Dear Lukas,
>>>>
>>>> I have tried: *pip install msnoise -U,* but I get this error. Do you
>>>> know
>>>> what the problem is?
>>>>
>>>> *Collecting msnoise*
>>>> *Collecting setuptools (from msnoise)*
>>>> * Using cached setuptools-36.0.1-py2.py3-none-any.whl*
>>>> *Collecting pymysql (from msnoise)*
>>>> * Using cached PyMySQL-0.7.11-py2.py3-none-any.whl*
>>>> *Collecting numpy>=1.0 (from msnoise)*
>>>> * Downloading numpy-1.13.0-cp27-cp27mu-manylinux1_x86_64.whl (16.6MB)*
>>>> * 100% |████████████████████████████████| 16.6MB 10kB/s *
>>>> *Collecting matplotlib (from msnoise)*
>>>> * Using cached matplotlib-2.0.2-cp27-cp27mu-manylinux1_x86_64.whl*
>>>> *Requirement already up-to-date: scipy in
>>>> /usr/local/anaconda/lib/python2.7/site-packages (from msnoise)*
>>>> *Collecting jinja2 (from msnoise)*
>>>> * Using cached Jinja2-2.9.6-py2.py3-none-any.whl*
>>>> *Requirement already up-to-date: wtforms in
>>>> /usr/local/anaconda/lib/python2.7/site-packages (from msnoise)*
>>>> *Collecting pandas (from msnoise)*
>>>> * Using cached pandas-0.20.2-cp27-cp27mu-manylinux1_x86_64.whl*
>>>> *Collecting flask (from msnoise)*
>>>> * Using cached Flask-0.12.2-py2.py3-none-any.whl*
>>>> *Collecting sqlalchemy (from msnoise)*
>>>> *Collecting folium (from msnoise)*
>>>> * Using cached folium-0.3.0-py2-none-any.whl*
>>>> *Collecting click (from msnoise)*
>>>> * Using cached click-6.7-py2.py3-none-any.whl*
>>>> *Collecting flask-admin (from msnoise)*
>>>> *Collecting obspy (from msnoise)*
>>>> *Collecting flask-wtf (from msnoise)*
>>>> * Using cached Flask_WTF-0.14.2-py2.py3-none-any.whl*
>>>> *Collecting markdown (from msnoise)*
>>>> *Requirement already up-to-date: python-dateutil in
>>>> /usr/local/anaconda/lib/python2.7/site-packages (from
>>>> matplotlib->msnoise)*
>>>> *Requirement already up-to-date: subprocess32 in
>>>> /usr/local/anaconda/lib/python2.7/site-packages (from
>>>> matplotlib->msnoise)*
>>>> *Requirement already up-to-date: cycler>=0.10 in
>>>> /usr/local/anaconda/lib/python2.7/site-packages/cycler-0.10.0-py2.7.egg
>>>> (from matplotlib->msnoise)*
>>>> *Requirement already up-to-date: six>=1.10 in
>>>> /usr/local/anaconda/lib/python2.7/site-packages (from
>>>> matplotlib->msnoise)*
>>>> *Requirement already up-to-date: pytz in
>>>> /usr/local/anaconda/lib/python2.7/site-packages (from
>>>> matplotlib->msnoise)*
>>>> *Requirement already up-to-date: functools32 in
>>>> /usr/local/anaconda/lib/python2.7/site-packages (from
>>>> matplotlib->msnoise)*
>>>> *Requirement already up-to-date: pyparsing!=2.0.4,!=2.1.2,!=2.1
>>>> .6,>=1.5.6
>>>> in /usr/local/anaconda/lib/python2.7/site-packages (from
>>>> matplotlib->msnoise)*
>>>> *Collecting MarkupSafe>=0.23 (from jinja2->msnoise)*
>>>> *Collecting Werkzeug>=0.7 (from flask->msnoise)*
>>>> * Using cached Werkzeug-0.12.2-py2.py3-none-any.whl*
>>>> *Requirement already up-to-date: itsdangerous>=0.21 in
>>>> /usr/local/anaconda/lib/python2.7/site-packages (from flask->msnoise)*
>>>> *Collecting branca (from folium->msnoise)*
>>>> * Using cached branca-0.2.0-py2-none-any.whl*
>>>> *Requirement already up-to-date: future>=0.12.4 in
>>>> /usr/local/anaconda/lib/python2.7/site-packages (from obspy->msnoise)*
>>>> *Collecting requests (from obspy->msnoise)*
>>>> * Downloading requests-2.18.1-py2.py3-none-any.whl (88kB)*
>>>> * 100% |████████████████████████████████| 92kB 4.0MB/s *
>>>> *Requirement already up-to-date: decorator in
>>>> /usr/local/anaconda/lib/python2.7/site-packages (from obspy->msnoise)*
>>>> *Collecting lxml (from obspy->msnoise)*
>>>> * Using cached lxml-3.8.0-cp27-cp27mu-manylinux1_x86_64.whl*
>>>> *Collecting chardet<3.1.0,>=3.0.2 (from requests->obspy->msnoise)*
>>>> * Downloading chardet-3.0.4-py2.py3-none-any.whl (133kB)*
>>>> * 100% |████████████████████████████████| 143kB 2.5MB/s *
>>>> *Requirement already up-to-date: certifi>=2017.4.17 in
>>>> /usr/local/anaconda/lib/python2.7/site-packages (from
>>>> requests->obspy->msnoise)*
>>>> *Collecting idna<2.6,>=2.5 (from requests->obspy->msnoise)*
>>>> * Using cached idna-2.5-py2.py3-none-any.whl*
>>>> *Collecting urllib3<1.22,>=1.21.1 (from requests->obspy->msnoise)*
>>>> * Using cached urllib3-1.21.1-py2.py3-none-any.whl*
>>>> *Installing collected packages: setuptools, pymysql, numpy, matplotlib,
>>>> MarkupSafe, jinja2, pandas, click, Werkzeug, flask, sqlalchemy, branca,
>>>> folium, flask-admin, chardet, idna, urllib3, requests, lxml, obspy,
>>>> flask-wtf, markdown, msnoise*
>>>> * Found existing installation: setuptools 33.1.1.post20170320*
>>>> * Uninstalling setuptools-33.1.1.post20170320:*
>>>> *Exception:*
>>>> *Traceback (most recent call last):*
>>>> * File
>>>> "/usr/local/anaconda/lib/python2.7/site-packages/pip/basecommand.py",
>>>> line
>>>> 215, in main*
>>>> * status = self.run(options, args)*
>>>> * File
>>>> "/usr/local/anaconda/lib/python2.7/site-packages/pip/command
>>>> s/install.py",
>>>> line 342, in run*
>>>> * prefix=options.prefix_path,*
>>>> * File
>>>> "/usr/local/anaconda/lib/python2.7/site-packages/pip/req/req_set.py",
>>>> line
>>>> 778, in install*
>>>> * requirement.uninstall(auto_confirm=True)*
>>>> * File
>>>> "/usr/local/anaconda/lib/python2.7/site-packages/pip/req/
>>>> req_install.py",
>>>> line 754, in uninstall*
>>>> * paths_to_remove.remove(auto_confirm)*
>>>> * File
>>>> "/usr/local/anaconda/lib/python2.7/site-packages/pip/req/
>>>> req_uninstall.py",
>>>> line 115, in remove*
>>>> * renames(path, new_path)*
>>>> * File
>>>> "/usr/local/anaconda/lib/python2.7/site-packages/pip/utils/_
>>>> _init__.py",
>>>> line 267, in renames*
>>>> * shutil.move(old, new)*
>>>> * File "/usr/local/anaconda/lib/python2.7/shutil.py", line 303, in
>>>> move*
>>>> * os.unlink(src)*
>>>> *OSError: [Errno 13] Permission denied:
>>>> '/usr/local/anaconda/bin/easy_install'*
>>>>
>>>>
>>>> Thank you very much for your time!
>>>>
>>>> Greetings,
>>>>
>>>> Oscar
>>>>
>>>> On Tue, Jun 6, 2017 at 1:42 AM, Lukas Preiswerk <
>>>> preiswerk at vaw.baug.ethz.ch>
>>>> wrote:
>>>>
>>>> Oscar,
>>>>
>>>>> I think “pip install msnoise -U” should do the trick (-U is for
>>>>> —upgrade).
>>>>>
>>>>> Lukas
>>>>>
>>>>>
>>>>>
>>>>>
>>>>>
>>>>>
>>>>>
>>>>> 2017-06-02 18:55 GMT+02:00 Oscar Alberto Castro Artola
>>>>> <oscar.cas.art at gmail.com>:
>>>>>
>>>>> Dear Christos and Lukas,
>>>>>>
>>>>>> first of all thanks for you help! I really apreciate it!
>>>>>>
>>>>>> Christos: I have a server with 40 cores, so I think the *-t 20* flag
>>>>>> is
>>>>>> working fine!
>>>>>>
>>>>>> Lukas: I tried to do a *pip install msnoise*, but I don't think it is
>>>>>> actually upgrading MSNoise, the output is:
>>>>>>
>>>>>> *Requirement already satisfied: msnoise in
>>>>>> /usr/local/anaconda/lib/python2.7/site-packages*
>>>>>> *Requirement already satisfied: setuptools in
>>>>>> /usr/local/anaconda/lib/python2.7/site-packages (from msnoise)*
>>>>>> *Requirement already satisfied: numpy>=1.0 in
>>>>>> /usr/local/anaconda/lib/python2.7/site-packages (from msnoise)*
>>>>>> *Requirement already satisfied: scipy in
>>>>>> /usr/local/anaconda/lib/python2.7/site-packages (from msnoise)*
>>>>>> *Requirement already satisfied: pandas in
>>>>>> /usr/local/anaconda/lib/python2.7/site-packages (from msnoise)*
>>>>>> *Requirement already satisfied: matplotlib in
>>>>>> /usr/local/anaconda/lib/python2.7/site-packages (from msnoise)*
>>>>>> *Requirement already satisfied: statsmodels in
>>>>>> /usr/local/anaconda/lib/python2.7/site-packages (from msnoise)*
>>>>>> *Requirement already satisfied: sqlalchemy in
>>>>>> /usr/local/anaconda/lib/python2.7/site-packages (from msnoise)*
>>>>>> *Requirement already satisfied: obspy in
>>>>>> /usr/local/anaconda/lib/python2.7/site-packages (from msnoise)*
>>>>>> *Requirement already satisfied: click in
>>>>>> /usr/local/anaconda/lib/python2.7/site-packages/click-4.0-py2.7.egg
>>>>>>
>>>>>> (from
>>>>>
>>>>> msnoise)*
>>>>>> *Requirement already satisfied: pymysql in
>>>>>> /usr/local/anaconda/lib/python2.7/site-packages (from msnoise)*
>>>>>> *Requirement already satisfied: flask in
>>>>>> /usr/local/anaconda/lib/python2.7/site-packages (from msnoise)*
>>>>>> *Requirement already satisfied: flask-admin in
>>>>>> /usr/local/anaconda/lib/python2.7/site-packages (from msnoise)*
>>>>>> *Requirement already satisfied: multiprocessing_logging in
>>>>>> /usr/local/anaconda/lib/python2.7/site-packages (from msnoise)*
>>>>>> *Requirement already satisfied: markdown in
>>>>>> /usr/local/anaconda/lib/python2.7/site-packages (from msnoise)*
>>>>>> *Requirement already satisfied: folium in
>>>>>> /usr/local/anaconda/lib/python2.7/site-packages (from msnoise)*
>>>>>> *Requirement already satisfied: six>=1.10 in
>>>>>> /usr/local/anaconda/lib/python2.7/site-packages (from
>>>>>>
>>>>>> matplotlib->msnoise)*
>>>>>
>>>>> *Requirement already satisfied: python-dateutil in
>>>>>> /usr/local/anaconda/lib/python2.7/site-packages (from
>>>>>>
>>>>>> matplotlib->msnoise)*
>>>>>
>>>>> *Requirement already satisfied: functools32 in
>>>>>> /usr/local/anaconda/lib/python2.7/site-packages (from
>>>>>>
>>>>>> matplotlib->msnoise)*
>>>>>
>>>>> *Requirement already satisfied: subprocess32 in
>>>>>> /usr/local/anaconda/lib/python2.7/site-packages (from
>>>>>>
>>>>>> matplotlib->msnoise)*
>>>>>
>>>>> *Requirement already satisfied: pytz in
>>>>>> /usr/local/anaconda/lib/python2.7/site-packages (from
>>>>>>
>>>>>> matplotlib->msnoise)*
>>>>>
>>>>> *Requirement already satisfied: cycler>=0.10 in
>>>>>> /usr/local/anaconda/lib/python2.7/site-packages/cycler-0.10.
>>>>>> 0-py2.7.egg
>>>>>> (from matplotlib->msnoise)*
>>>>>> *Requirement already satisfied: pyparsing!=2.0.4,!=2.1.2,!=2.1
>>>>>> .6,>=1.5.6
>>>>>>
>>>>>> in
>>>>>
>>>>> /usr/local/anaconda/lib/python2.7/site-packages (from
>>>>>>
>>>>>> matplotlib->msnoise)*
>>>>>
>>>>> *Requirement already satisfied: future>=0.12.4 in
>>>>>> /usr/local/anaconda/lib/python2.7/site-packages (from
>>>>>> obspy->msnoise)*
>>>>>> *Requirement already satisfied: lxml in
>>>>>> /usr/local/anaconda/lib/python2.7/site-packages (from
>>>>>> obspy->msnoise)*
>>>>>> *Requirement already satisfied: decorator in
>>>>>> /usr/local/anaconda/lib/python2.7/site-packages (from
>>>>>> obspy->msnoise)*
>>>>>> *Requirement already satisfied: requests in
>>>>>> /usr/local/anaconda/lib/python2.7/site-packages (from
>>>>>> obspy->msnoise)*
>>>>>> *Requirement already satisfied: wtforms in
>>>>>> /usr/local/anaconda/lib/python2.7/site-packages (from
>>>>>>
>>>>>> flask-admin->msnoise)*
>>>>>
>>>>> *Requirement already satisfied: Jinja2 in
>>>>>> /usr/local/anaconda/lib/python2.7/site-packages (from
>>>>>> folium->msnoise)*
>>>>>>
>>>>>> This is the second time I do *msnoise -t 20 compute_mwcs*, last time
>>>>>> it
>>>>>> worked fine but I needed to change *dtt_lag* to "dynamic". So when I
>>>>>>
>>>>>> tried
>>>>>
>>>>> to rerun* msnoise -t 20 compute_mwcs* with the new parameter this error
>>>>>> message appears. What I've done is run the process in the morning, all
>>>>>>
>>>>>> day
>>>>>
>>>>> it works fine, but the next morning I always find that error message.
>>>>>>
>>>>>> Thanks again!
>>>>>>
>>>>>> Oscar
>>>>>>
>>>>>> On Fri, Jun 2, 2017 at 8:39 AM, Lukas Preiswerk <
>>>>>>
>>>>>> preiswerk at vaw.baug.ethz.ch>
>>>>>
>>>>> wrote:
>>>>>>
>>>>>> Hi Oscar
>>>>>>
>>>>>>> The problem is that “MySQL server has gone away”, so it can’t update
>>>>>>> the database after finishing the MWCS job. We fixed this in the
>>>>>>> newest
>>>>>>> version, so you should indeed update.
>>>>>>>
>>>>>>> I think that updating is done by “pip install msnoise”, and then for
>>>>>>> each project “msnoise upgrade_db” (see the release notes
>>>>>>> http://msnoise.org/doc/releasenotes/msnoise-1.5.html ). Tom can
>>>>>>> clarify if this method I just described is actually the way to go…
>>>>>>>
>>>>>>> Best, Lukas
>>>>>>>
>>>>>>>
>>>>>>>
>>>>>>> 2017-06-02 15:20 GMT+02:00 Christos Evangelidis <cevan at noa.gr>:
>>>>>>>
>>>>>>> Dear Oscar,
>>>>>>>>
>>>>>>>> Can you really run 20 instances of the code (-t 20) ? I find the -t
>>>>>>>> 20
>>>>>>>> rather high, but your machine might support it..
>>>>>>>>
>>>>>>>> Regards,
>>>>>>>>
>>>>>>>> Christos
>>>>>>>>
>>>>>>>> Στις 1 Ιουν 2017 6:01 μμ, ο χρήστης "Oscar Alberto Castro Artola" <
>>>>>>>> oscar.cas.art at gmail.com> έγραψε:
>>>>>>>>
>>>>>>>> Hello,
>>>>>>>>
>>>>>>>> I have 10 years of data for 13 stations, I have computed the CCF and
>>>>>>>>
>>>>>>>> now
>>>>>>>
>>>>>> it
>>>>>>
>>>>>>> is turn to compute the MWCS. When I do *msnoise -t 20 compute_mwcs
>>>>>>>>
>>>>>>>> *this
>>>>>>>
>>>>>> error appears:
>>>>>>
>>>>>>> *Process Process-4:*
>>>>>>>> *Traceback (most recent call last):*
>>>>>>>> * File "/usr/local/anaconda/lib/python2.7/multiprocessing/
>>>>>>>>
>>>>>>>> process.py",
>>>>>>>
>>>>>> line 258, in _bootstrap*
>>>>>>
>>>>>>> * self.run()*
>>>>>>>> * File "/usr/local/anaconda/lib/python2.7/multiprocessing/
>>>>>>>>
>>>>>>>> process.py",
>>>>>>>
>>>>>> line 114, in run*
>>>>>>
>>>>>>> * self._target(*self._args, **self._kwargs)*
>>>>>>>> * File
>>>>>>>> "/usr/local/anaconda/lib/python2.7/site-packages/msnoise/
>>>>>>>> s05compute_mwcs.py",
>>>>>>>> line 150, in main*
>>>>>>>> * update_job(db, day, pair, jobtype='DTT', flag='D')*
>>>>>>>> * File "/usr/local/anaconda/lib/python2.7/site-packages/
>>>>>>>>
>>>>>>>> msnoise/api.py",
>>>>>>>
>>>>>>> line 615, in update_job*
>>>>>>>> * job = session.query(Job).filter(Job.day ==
>>>>>>>> day).filter(Job.pair
>>>>>>>>
>>>>>>>> ==
>>>>>>>
>>>>>> pair).filter(Job.jobtype == jobtype).first()*
>>>>>>
>>>>>>> * File
>>>>>>>> "/usr/local/anaconda/lib/python2.7/site-packages/
>>>>>>>>
>>>>>>>> sqlalchemy/orm/query.py",
>>>>>>>
>>>>>>> line 2755, in first*
>>>>>>>> * ret = list(self[0:1])*
>>>>>>>> * File
>>>>>>>> "/usr/local/anaconda/lib/python2.7/site-packages/
>>>>>>>>
>>>>>>>> sqlalchemy/orm/query.py",
>>>>>>>
>>>>>>> line 2547, in __getitem__*
>>>>>>>> * return list(res)*
>>>>>>>> * File
>>>>>>>> "/usr/local/anaconda/lib/python2.7/site-packages/
>>>>>>>>
>>>>>>>> sqlalchemy/orm/query.py",
>>>>>>>
>>>>>>> line 2855, in __iter__*
>>>>>>>> * return self._execute_and_instances(context)*
>>>>>>>> * File
>>>>>>>> "/usr/local/anaconda/lib/python2.7/site-packages/
>>>>>>>>
>>>>>>>> sqlalchemy/orm/query.py",
>>>>>>>
>>>>>>> line 2878, in _execute_and_instances*
>>>>>>>> * result = conn.execute(querycontext.statement, self._params)*
>>>>>>>> * File
>>>>>>>> "/usr/local/anaconda/lib/python2.7/site-packages/
>>>>>>>>
>>>>>>>> sqlalchemy/engine/base.py",
>>>>>>>
>>>>>>> line 945, in execute*
>>>>>>>> * return meth(self, multiparams, params)*
>>>>>>>> * File
>>>>>>>> "/usr/local/anaconda/lib/python2.7/site-packages/sqlalchemy/
>>>>>>>> sql/elements.py",
>>>>>>>> line 263, in _execute_on_connection*
>>>>>>>> * return connection._execute_clauseelement(self, multiparams,
>>>>>>>>
>>>>>>>> params)*
>>>>>>>
>>>>>>> * File
>>>>>>>> "/usr/local/anaconda/lib/python2.7/site-packages/
>>>>>>>>
>>>>>>>> sqlalchemy/engine/base.py",
>>>>>>>
>>>>>>> line 1053, in _execute_clauseelement*
>>>>>>>> * compiled_sql, distilled_params*
>>>>>>>> * File
>>>>>>>> "/usr/local/anaconda/lib/python2.7/site-packages/
>>>>>>>>
>>>>>>>> sqlalchemy/engine/base.py",
>>>>>>>
>>>>>>> line 1189, in _execute_context*
>>>>>>>> * context)*
>>>>>>>> * File
>>>>>>>> "/usr/local/anaconda/lib/python2.7/site-packages/
>>>>>>>>
>>>>>>>> sqlalchemy/engine/base.py",
>>>>>>>
>>>>>>> line 1402, in _handle_dbapi_exception*
>>>>>>>> * exc_info*
>>>>>>>> * File
>>>>>>>> "/usr/local/anaconda/lib/python2.7/site-packages/
>>>>>>>>
>>>>>>>> sqlalchemy/util/compat.py",
>>>>>>>
>>>>>>> line 203, in raise_from_cause*
>>>>>>>> * reraise(type(exception), exception, tb=exc_tb, cause=cause)*
>>>>>>>> * File
>>>>>>>> "/usr/local/anaconda/lib/python2.7/site-packages/
>>>>>>>>
>>>>>>>> sqlalchemy/engine/base.py",
>>>>>>>
>>>>>>> line 1182, in _execute_context*
>>>>>>>> * context)*
>>>>>>>> * File
>>>>>>>> "/usr/local/anaconda/lib/python2.7/site-packages/sqlalchemy/
>>>>>>>> engine/default.py",
>>>>>>>> line 470, in do_execute*
>>>>>>>> * cursor.execute(statement, parameters)*
>>>>>>>> * File
>>>>>>>> "/usr/local/anaconda/lib/python2.7/site-packages/pymysql/
>>>>>>>> cursors.py",
>>>>>>>>
>>>>>>>> line
>>>>>>>
>>>>>>> 158, in execute*
>>>>>>>> * result = self._query(query)*
>>>>>>>> * File
>>>>>>>> "/usr/local/anaconda/lib/python2.7/site-packages/pymysql/
>>>>>>>> cursors.py",
>>>>>>>>
>>>>>>>> line
>>>>>>>
>>>>>>> 308, in _query*
>>>>>>>> * conn.query(q)*
>>>>>>>> * File
>>>>>>>> "/usr/local/anaconda/lib/python2.7/site-packages/
>>>>>>>>
>>>>>>>> pymysql/connections.py",
>>>>>>>
>>>>>>> line 819, in query*
>>>>>>>> * self._execute_command(COMMAND.COM_QUERY, sql)*
>>>>>>>> * File
>>>>>>>> "/usr/local/anaconda/lib/python2.7/site-packages/
>>>>>>>>
>>>>>>>> pymysql/connections.py",
>>>>>>>
>>>>>>> line 1037, in _execute_command*
>>>>>>>> * self._write_bytes(packet)*
>>>>>>>> * File
>>>>>>>> "/usr/local/anaconda/lib/python2.7/site-packages/
>>>>>>>>
>>>>>>>> pymysql/connections.py",
>>>>>>>
>>>>>>> line 989, in _write_bytes*
>>>>>>>> * raise err.OperationalError(2006, "MySQL server has gone away
>>>>>>>>
>>>>>>>> (%r)" %
>>>>>>>
>>>>>> (e,))*
>>>>>>
>>>>>>> *OperationalError: (pymysql.err.OperationalError) (2006, "MySQL
>>>>>>>> server
>>>>>>>>
>>>>>>>> has
>>>>>>>
>>>>>>> gone away (error(32, 'Broken pipe'))") [SQL: u'SELECT jobs.ref AS
>>>>>>>>
>>>>>>>> jobs_ref,
>>>>>>>
>>>>>>> jobs.day AS jobs_day, jobs.pair AS jobs_pair, jobs.jobtype AS
>>>>>>>>
>>>>>>>> jobs_jobtype,
>>>>>>>
>>>>>>> jobs.flag AS jobs_flag, jobs.lastmod AS jobs_lastmod \nFROM jobs
>>>>>>>>
>>>>>>>> \nWHERE
>>>>>>>
>>>>>> jobs.day = %(day_1)s AND jobs.pair = %(pair_1)s AND jobs.jobtype =
>>>>>>
>>>>>>> %(jobtype_1)s \n LIMIT %(param_1)s'] [parameters: {u'param_1': 1,
>>>>>>>>
>>>>>>>> u'day_1':
>>>>>>>
>>>>>>> '2009-02-16', u'jobtype_1': 'DTT', u'pair_1': 'IG.ARIG:IG.MOIG'}]*
>>>>>>>>
>>>>>>>> At the beginning everything works fine, but because it takes a long
>>>>>>>>
>>>>>>>> time
>>>>>>>
>>>>>> to
>>>>>>
>>>>>>> make the computation (around 5 days), every time that I come back to
>>>>>>>>
>>>>>>>> see
>>>>>>>
>>>>>> the results this happens. I am working with MSNoise 1.4 and I don't
>>>>>>
>>>>>>> know
>>>>>>>
>>>>>> how to upgrade to MSNoise 1.5.
>>>>>>
>>>>>>> Does anyone know how to fix this?
>>>>>>>>
>>>>>>>> Thanks in advance!
>>>>>>>>
>>>>>>>> Oscar
>>>>>>>> _______________________________________________
>>>>>>>> MSNoise mailing list
>>>>>>>> MSNoise at mailman-as.oma.be
>>>>>>>> http://mailman-as.oma.be/mailman/listinfo/msnoise
>>>>>>>> _______________________________________________
>>>>>>>> MSNoise mailing list
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>>>>>>>> http://mailman-as.oma.be/mailman/listinfo/msnoise
>>>>>>>>
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>>>>>>> MSNoise mailing list
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>>>>>>>
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>>>>>>>
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>>>>>>
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