Closed eleonorazari closed 3 years ago
This is likely an a versioning issue after moving to pip. I updated the setup.py to bump the version number and everything seems to be good to go. Steps to get it working:
1) Do a fresh pull of ppv 2) pip uninstall ppv ( just to make sure every last trace of old ppv is gone) 3) cd to directory of your local copy of ppv repo 4) pip install -e .
Let me know how that goes!
I deleted the entire directory and cloned it again (and earlier in the day I also deleted the environment and created it again)
git clone https://github.com/jcbird/ppv.git
then cd ppv and
pip install -e .
Obtaining file:///home/zari/ppv Installing collected packages: ppv Running setup.py develop for ppv Successfully installed ppv
So it seems it's working fine, but:
import ppv -> works from ppv.targets import Targets -> same error as before.
What version of python are you using?
On Mon, Nov 23, 2020 at 10:24 AM Eleonora notifications@github.com wrote:
I deleted the entire directory and cloned it again (and earlier in the day I also deleted the environment and created it again)
git clone https://github.com/jcbird/ppv.git
then cd ppv and
pip install -e .
Obtaining file:///home/zari/ppv Installing collected packages: ppv Running setup.py develop for ppv Successfully installed ppv
So it seems it's working fine, but:
import ppv -> works from ppv.targets import Targets -> same error as before.
— You are receiving this because you commented.
Reply to this email directly, view it on GitHub https://github.com/jcbird/ppv/issues/17#issuecomment-732269374, or unsubscribe https://github.com/notifications/unsubscribe-auth/ABRADEYPROGXABU264TKLCLSRKECNANCNFSM4T7NDKCQ .
--
Jonathan Bird Stevenson Postdoctoral Fellow Department of Physics and Astronomy, Vanderbilt University
3.8.6
Just checking. Have you done a fresh pull of five-plates too?
On Mon, Nov 23, 2020 at 10:28 AM Eleonora notifications@github.com wrote:
3.8.6
— You are receiving this because you commented.
Reply to this email directly, view it on GitHub https://github.com/jcbird/ppv/issues/17#issuecomment-732272110, or unsubscribe https://github.com/notifications/unsubscribe-auth/ABRADE7GUGDPOSAA3OV53B3SRKESLANCNFSM4T7NDKCQ .
--
Jonathan Bird Stevenson Postdoctoral Fellow Department of Physics and Astronomy, Vanderbilt University
Yes, I did that. I am trying to install ppv environment and everything from scratch again.
Nope, nada.
The only thing that comes to my mind is using my partner laptop, but it's not the most practical thing in the world.
FOUND the bug! a critical file in five_plates was modified sometime in the last 24 hours in a unforseen way. Give me 30 minutes or less!
Fingers crossed!
Latest commit eebac58 should do the trick! Thanks for pushing on this and for the messages. Let me know.
Notes to myself and those who are interested: ppv gets the available five_plates plateruns by parsing https://github.com/sdss/five_plates/blob/master/plateruns/plateruns_description.txt
Sometime in the last 24 hours, that table was updated for the new BHM_03 run, but no BHM_03 plate_data exists yet, hence the failures. ppv can handle that situation gracefully now.
Okay, it is almost working! Now I get the error below.
However if I use platerun_10y = ppv.fiveplates.Platerun('2020.10.y.mwm-bhm') everything works fine.
maybe_observed = OB_targets.available_in(platerun_bhm01) Please be patient. Initial target loading for Platerun can take up to 1 second per field. Loading target data from 18 Fields...
AttributeError Traceback (most recent call last) ~/ppv/src/ppv/fiveplates.py in fields(self) 420 try: --> 421 return self._fields 422 except AttributeError:
AttributeError: 'Platerun' object has no attribute '_fields'
During handling of the above exception, another exception occurred:
TypeError Traceback (most recent call last)
Ok, could you send the line where you define platerun_bhm01? I want to see what string is passed. Thanks.
On Mon, Nov 23, 2020 at 1:03 PM Eleonora notifications@github.com wrote:
Okay, it is almost working! Now I get the error below.
However if I use platerun_10y = ppv.fiveplates.Platerun('2020.10.y.mwm-bhm') everything works fine.
maybe_observed = OB_targets.available_in(platerun_bhm01) Please be patient. Initial target loading for Platerun can take up to 1 second per field. Loading target data from 18 Fields...
AttributeError Traceback (most recent call last) ~/ppv/src/ppv/fiveplates.py in fields(self) 420 try: --> 421 return self._fields 422 except AttributeError:
AttributeError: 'Platerun' object has no attribute '_fields'
During handling of the above exception, another exception occurred:
TypeError Traceback (most recent call last) in ----> 1 maybe_observed = OB_targets.available_in(platerun_bhm1)
~/ppv/src/ppv/targets.py in available_in(self, pl_field_plrun) 140 if (isinstance(pl_field_plrun, groups.Platerun) | 141 isinstance(pl_field_plrun, fiveplates.Platerun)): --> 142 return self._available_in_platerun(pl_field_plrun) 143 return self._available_in_field(pl_field_plrun) # SAME logice for plate/field 144
~/ppv/src/ppv/targets.py in available_in_platerun(self, platerun) 130 Initial target loading for Platerun can take up to 1 second per field. 131 Loading target data from {len(platerun_.fieldnames)} Fields...""", flush=True) --> 132 indx_all = [self.availablein(field) for field in platerun.fields] 133 return np.bitwise_or.reduce(indx_all) 134
~/ppv/src/ppv/fiveplates.py in fields(self) 421 return self._fields 422 except AttributeError: --> 423 self._fields = self.load_fields() 424 return self._fields 425
~/ppv/src/ppv/fiveplates.py in load_fields(self) 403 404 def load_fields(self): --> 405 return [Field(fieldname, design_id=designID) for fieldname, designID in 406 zip(self.fieldnames, self.designIDs)] 407
~/ppv/src/ppv/fiveplates.py in (.0) 403 404 def load_fields(self): --> 405 return [Field(fieldname, design_id=designID) for fieldname, designID in 406 zip(self.fieldnames, self.designIDs)] 407
~/ppv/src/ppv/fiveplates.py in init(self, fieldname, design_id) 174 obstime=Time(self.epoch, format='decimalyear')) 175 self.platerun = self._get_platerun() --> 176 self._platedef_params = io.fp_platedef_params(self.platerun, 177 self.name, 178 self.designID)
~/ppv/src/ppv/data/io.py in fp_platedef_params(platerun, field, designID) 224 targetlists_zip = paths.fiveplates_targetlists(platerun) 225 params = {} --> 226 with ZipFile(os.fspath(targetlists_zip)) as tl_zip: 227 with tl_zip.open(paths.fiveplates_platedef(field, designID), 'r') as pldef: 228 rows = pldef.readlines()
TypeError: expected str, bytes or os.PathLike object, not Column
— You are receiving this because you commented.
Reply to this email directly, view it on GitHub https://github.com/jcbird/ppv/issues/17#issuecomment-732362570, or unsubscribe https://github.com/notifications/unsubscribe-auth/ABRADEZT6TBX2X5MIEKNOLDSRKWXXANCNFSM4T7NDKCQ .
--
Jonathan Bird Stevenson Postdoctoral Fellow Department of Physics and Astronomy, Vanderbilt University
Here it is: platerun_bhm1 = ppv.fiveplates.Platerun('BHM_01')
One more time! hahaha :)
Latest commit should fix this (> 18f516a) . Fresh pull and should be good to go.
Notes:
okay give me 5 mins
Okay! Everything is working :) Closing the issue!
Woohoo! Thanks for your efforts !
On Mon, Nov 23, 2020 at 1:51 PM Eleonora notifications@github.com wrote:
Okay! Everything is working :) Closing the issue!
— You are receiving this because you commented.
Reply to this email directly, view it on GitHub https://github.com/jcbird/ppv/issues/17#issuecomment-732388831, or unsubscribe https://github.com/notifications/unsubscribe-auth/ABRADE44QYDV3CTKSECSHKTSRK4LPANCNFSM4T7NDKCQ .
--
Jonathan Bird Stevenson Postdoctoral Fellow Department of Physics and Astronomy, Vanderbilt University
Hi John, me again.
I have an issue (or maybe 2) with the new installation of ppv.
The first one is after I give the command:
pip install -e .
It seems everything is working but I get the following message:
Obtaining file:///home/zari/ppv Installing collected packages: ppv Attempting uninstall: ppv Found existing installation: ppv 0.36 Uninstalling ppv-0.36: Successfully uninstalled ppv-0.36 Running setup.py develop for ppv Successfully installed ppv Traceback (most recent call last): File "/home/zari/anaconda3/envs/ppv/bin/pip", line 10, in
sys.exit(main())
File "/home/zari/anaconda3/envs/ppv/lib/python3.8/site-packages/pip/_internal/cli/main.py", line 75, in main
return command.main(cmd_args)
File "/home/zari/anaconda3/envs/ppv/lib/python3.8/site-packages/pip/_internal/cli/base_command.py", line 121, in main
return self._main(args)
File "/home/zari/anaconda3/envs/ppv/lib/python3.8/site-packages/pip/_internal/cli/base_command.py", line 265, in _main
self.handle_pip_version_check(options)
File "/home/zari/anaconda3/envs/ppv/lib/python3.8/site-packages/pip/_internal/cli/req_command.py", line 149, in handle_pip_version_check
session = self._build_session(
File "/home/zari/anaconda3/envs/ppv/lib/python3.8/site-packages/pip/_internal/cli/req_command.py", line 90, in _build_session
session = PipSession(
File "/home/zari/anaconda3/envs/ppv/lib/python3.8/site-packages/pip/_internal/network/session.py", line 249, in init
self.headers["User-Agent"] = user_agent()
File "/home/zari/anaconda3/envs/ppv/lib/python3.8/site-packages/pip/_internal/network/session.py", line 159, in user_agent
setuptools_version = get_installed_version("setuptools")
File "/home/zari/anaconda3/envs/ppv/lib/python3.8/site-packages/pip/_internal/utils/misc.py", line 665, in get_installed_version
working_set = pkg_resources.WorkingSet()
File "/home/zari/anaconda3/envs/ppv/lib/python3.8/site-packages/pip/_vendor/pkg_resources/init.py", line 567, in init
self.add_entry(entry)
File "/home/zari/anaconda3/envs/ppv/lib/python3.8/site-packages/pip/_vendor/pkg_resources/init.py", line 623, in add_entry
for dist in find_distributions(entry, True):
File "/home/zari/anaconda3/envs/ppv/lib/python3.8/site-packages/pip/_vendor/pkg_resources/init.py", line 1983, in find_eggs_in_zip
if metadata.has_metadata('PKG-INFO'):
File "/home/zari/anaconda3/envs/ppv/lib/python3.8/site-packages/pip/_vendor/pkg_resources/init.py", line 1414, in has_metadata
return self._has(path)
File "/home/zari/anaconda3/envs/ppv/lib/python3.8/site-packages/pip/_vendor/pkg_resources/init.py", line 1854, in _has
return zip_path in self.zipinfo or zip_path in self._index()
File "/home/zari/anaconda3/envs/ppv/lib/python3.8/site-packages/pip/_vendor/pkg_resources/init.py", line 1731, in zipinfo
return self._zip_manifests.load(self.loader.archive)
File "/home/zari/anaconda3/envs/ppv/lib/python3.8/site-packages/pip/_vendor/pkg_resources/init.py", line 1688, in load
mtime = os.stat(path).st_mtime
FileNotFoundError: [Errno 2] No such file or directory: '/home/zari/anaconda3/envs/ppv/lib/python3.8/site-packages/ppv-0.36-py3.8.egg'
I am not sure this is actually an error but then, when I try to do the usual vetting:
from ppv.targets import Targets
I get the following error:
StopIteration Traceback (most recent call last)