Re: [scipion-users] Problems with CONDA_ACTIVATION_CMD using Cryolo

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Yes you are correct. You can only use cryolo 1.8 outside Scipion.

Best regards,
Grigory

--------------------------------------------------------------------------------
Grigory Sharov, Ph.D.

MRC Laboratory of Molecular Biology,
Francis Crick Avenue,
Cambridge Biomedical Campus,
Cambridge CB2 0QH, UK.
tel. +44 (0) 1223 267228 <+44%201223%20267228>
e-mail: gs...@mr...

On Thu, Sep 30, 2021 at 3:17 PM Carlos HENRIQUE FERNANDES <
car...@so...> wrote:

> Dear Grigory,
>
> Yes, you indeed said that, I realized now.
> Thus, we have two problems, scipion does not support cryolo 1.8 and my
> NVIDIA GeForce is not supported by cryolo 1.7.
> So, as I understand, we can not solve this for now.
> Thanks again.
> Best regards,
> Carlos.
>
> ------------------------------
> *From: *"Grigory Sharov" <sha...@gm...>
> *To: *"scipion-users" <sci...@li...>
> *Sent: *Thursday, September 30, 2021 3:52:48 PM
> *Subject: *Re: [scipion-users] Problems with CONDA_ACTIVATION_CMD using
> Cryolo
>
> Hi,
> As I said earlier, the sphire plugin does not support cryolo 1.8, you
> cannot install or/and use it inside Scipion.
>
> Best regards,
> Grigory
>
>
> --------------------------------------------------------------------------------
> Grigory Sharov, Ph.D.
>
> MRC Laboratory of Molecular Biology,
> Francis Crick Avenue,
> Cambridge Biomedical Campus,
> Cambridge CB2 0QH, UK.
> tel. +44 (0) 1223 267228 <+44%201223%20267228>
> e-mail: gs...@mr...
>
>
> On Thu, Sep 30, 2021 at 2:39 PM Carlos HENRIQUE FERNANDES <
> car...@so...> wrote:
>
>> Dear Grigory,
>>
>> So, should I remove cryolo-1.7.6 and reinstall cryolo 1.8 (I removed it
>> using pip uninstall cryolo) and put it to work inside Scipion?
>> I tried to no use GPUs on cryolo picking, but I obtained the same error.
>> Thanks again for the help.
>> Best regards, Carlos.
>>
>> ------------------------------
>> *From: *"Grigory Sharov" <sha...@gm...>
>> *To: *"scipion-users" <sci...@li...>
>> *Sent: *Thursday, September 30, 2021 3:26:53 PM
>> *Subject: *Re: [scipion-users] Problems with CONDA_ACTIVATION_CMD using
>> Cryolo
>>
>> Hi Carlos,
>> you are using NVIDIA GeForce RTX 3090 which is only supported by cryolo
>> 1.8.
>>
>> Have a look here:
>> https://cryolo.readthedocs.io/en/latest/installation.html#with-cuda-11
>>
>> AFAIK, Scipion does not support this version yet.
>>
>> Best regards,
>> Grigory
>>
>>
>> --------------------------------------------------------------------------------
>> Grigory Sharov, Ph.D.
>>
>> MRC Laboratory of Molecular Biology,
>> Francis Crick Avenue,
>> Cambridge Biomedical Campus,
>> Cambridge CB2 0QH, UK.
>> tel. +44 (0) 1223 267228 <+44%201223%20267228>
>> e-mail: gs...@mr...
>>
>>
>> On Thu, Sep 30, 2021 at 2:20 PM Carlos HENRIQUE FERNANDES <
>> car...@so...> wrote:
>>
>>> Dear Grigory,
>>>
>>> Thanks for all support. Cryolo training worked very well; however, I'm
>>> facing some problems with cryolo picking.
>>> I obtain this error:
>>> *Protocol failed: Command ' eval
>>> "$(/home/impmc/eman2-sphire-sparx/bin/conda shell.bash hook 2>
>>> /dev/null)"&& conda activate cryolo-1.7.6 && cryolo_predict.py -c
>>> Runs/002135_SphireProtCRYOLOPicking/extra/config.json -w
>>> /mnt/data2/charles/keops_scipion/keops_aout21/Runs/001993_SphireProtCRYOLOTraining/model.h5
>>> -i Runs/002135_SphireProtCRYOLOPicking/tmp/micrographs_1-27/ -o
>>> Runs/002135_SphireProtCRYOLOPicking/tmp/micrographs_1-27/ -t 0.300 -g 1 -nc
>>> 4 --otf' returned non-zero exit status 1*
>>>
>>> When I execute in bash *conda activate cryolo-1.7.6 && which
>>> cryolo_predict.py*, I obtain a normal response
>>> */home/impmc/eman2-sphire-sparx/envs/cryolo-1.7.6/bin/cryolo_predict.py*
>>>
>>> I'm sorry, I thought that the problems were solved...
>>> I attached the run.stderr and run.stdout files
>>> Thanks again for the support.
>>>
>>> ------------------------------
>>> *From: *"Grigory Sharov" <sha...@gm...>
>>> *To: *"scipion-users" <sci...@li...>
>>> *Sent: *Thursday, September 30, 2021 2:08:45 PM
>>> *Subject: *Re: [scipion-users] Problems with CONDA_ACTIVATION_CMD using
>>> Cryolo
>>>
>>> Oh, that's great that it worked!
>>> You are welcome!
>>> Best regards,
>>> Grigory
>>>
>>>
>>> --------------------------------------------------------------------------------
>>> Grigory Sharov, Ph.D.
>>>
>>> MRC Laboratory of Molecular Biology,
>>> Francis Crick Avenue,
>>> Cambridge Biomedical Campus,
>>> Cambridge CB2 0QH, UK.
>>> tel. +44 (0) 1223 267228 <+44%201223%20267228>
>>> e-mail: gs...@mr...
>>>
>>>
>>> On Thu, Sep 30, 2021 at 1:04 PM Carlos HENRIQUE FERNANDES <
>>> car...@so...> wrote:
>>>
>>>> Dear Grigory,
>>>>
>>>> Thanks so so much!
>>>> Cryolo is running now in Scipion.
>>>> Best regards,
>>>> Carlos.
>>>>
>>>> ------------------------------
>>>> *From: *"Grigory Sharov" <sha...@gm...>
>>>> *To: *"scipion-users" <sci...@li...>
>>>> *Sent: *Thursday, September 30, 2021 12:18:43 PM
>>>> *Subject: *Re: [scipion-users] Problems with CONDA_ACTIVATION_CMD
>>>> using Cryolo
>>>>
>>>> Hi Carlos,
>>>> ok, can you run *pip uninstall cryolo* and then execute in that order:
>>>> 1) *which cryolo_train.py *
>>>> 2) *conda activate* *cryolo-1.7.6 && which cryolo_train.py*
>>>>
>>>> The first one should fail but the second one should show
>>>> /home/impmc/eman2-sphire-sparx/envs/cryolo-1.7.6/bin/...
>>>>
>>>> Best regards,
>>>> Grigory
>>>>
>>>>
>>>> --------------------------------------------------------------------------------
>>>> Grigory Sharov, Ph.D.
>>>>
>>>> MRC Laboratory of Molecular Biology,
>>>> Francis Crick Avenue,
>>>> Cambridge Biomedical Campus,
>>>> Cambridge CB2 0QH, UK.
>>>> tel. +44 (0) 1223 267228 <+44%201223%20267228>
>>>> e-mail: gs...@mr...
>>>>
>>>>
>>>> On Thu, Sep 30, 2021 at 11:11 AM Carlos HENRIQUE FERNANDES <
>>>> car...@so...> wrote:
>>>>
>>>>> Dear Grigory,
>>>>>
>>>>> When I run *conda activate* *cryolo-1.7.6 && which cryolo_train.py*
>>>>> and *which cryolo_train.py *in bash I receive as response:
>>>>> */home/impmc/.local/bin/cryolo_train.py*
>>>>>
>>>>> And when I go to this address, I can run all cryolo python files normally.
>>>>> Best regards,
>>>>> Carlos.
>>>>>
>>>>> ------------------------------
>>>>> *From: *"Grigory Sharov" <sha...@gm...>
>>>>> *To: *"scipion-users" <sci...@li...>
>>>>> *Sent: *Thursday, September 30, 2021 11:58:30 AM
>>>>> *Subject: *Re: [scipion-users] Problems with CONDA_ACTIVATION_CMD
>>>>> using Cryolo
>>>>>
>>>>> Can you run *conda activate cryolo-1.7.6 && which cryolo_train.py* ?
>>>>> Can you also run *which cryolo_train.py *? (in case you installed
>>>>> cryolo into conda base env)
>>>>>
>>>>> Best regards,
>>>>> Grigory
>>>>>
>>>>>
>>>>> --------------------------------------------------------------------------------
>>>>> Grigory Sharov, Ph.D.
>>>>>
>>>>> MRC Laboratory of Molecular Biology,
>>>>> Francis Crick Avenue,
>>>>> Cambridge Biomedical Campus,
>>>>> Cambridge CB2 0QH, UK.
>>>>> tel. +44 (0) 1223 267228 <+44%201223%20267228>
>>>>> e-mail: gs...@mr...
>>>>>
>>>>>
>>>>> On Thu, Sep 30, 2021 at 10:47 AM Carlos HENRIQUE FERNANDES <
>>>>> car...@so...> wrote:
>>>>>
>>>>>> Dears Grigory and Pablo,
>>>>>>
>>>>>> Sorry for the problems with conda; these things are very recent to
>>>>>> me; I'm still learning how to deal with them.
>>>>>> And, thanks again for the messages and for the support.
>>>>>>
>>>>>> About libcudnn.so.8; indeed there is no libcudnn.so.8 installed in
>>>>>> cryolo-1.7.6 environment lib folder. There is only libcudnn.so.7.1.2:
>>>>>> /home/impmc/eman2-sphire-sparx/envs/cryolo-1.7.6/lib/libcudnn.so.7.1.2
>>>>>>
>>>>>> /home/impmc/eman2-sphire-sparx/envs/cryoloCPU-1.7.6/lib/libcudnn.so.7.1.2
>>>>>>
>>>>>> /home/impmc/eman2-sphire-sparx/pkgs/cudnn-7.1.2-cuda9.0_0/lib/libcudnn.so.7.1.2
>>>>>> It is possible to change to libcudnn.so.8 inside these folders?
>>>>>>
>>>>>> About conda; Yes, cryolo 1.8 are using conda from eman... I installed
>>>>>> miniconda and anaconda3; however when I type 'which conda', I have as only
>>>>>> response the conda from eman.
>>>>>> Best regards,
>>>>>> Carlos.
>>>>>>
>>>>>> ------------------------------
>>>>>> *From: *"Pablo Conesa" <pc...@cn...>
>>>>>> *To: *"scipion-users" <sci...@li...>
>>>>>> *Sent: *Thursday, September 30, 2021 10:29:11 AM
>>>>>> *Subject: *Re: [scipion-users] Problems with CONDA_ACTIVATION_CMD
>>>>>> using Cryolo
>>>>>>
>>>>>> I agree with Grigory, using eman2 conda is not a good practice.
>>>>>>
>>>>>> Probably he did not decided that but Scipion installer used the
>>>>>> available one, and probably that one was eman2 one.
>>>>>>
>>>>>> If you want to undo this you will need to install miniconda, and have
>>>>>> it available instead of eman2 one.
>>>>>>
>>>>>> "which conda" will tell you the available one.
>>>>>>
>>>>>>
>>>>>> On 29/9/21 18:54, Grigory Sharov wrote:
>>>>>>
>>>>>> Thanks! In run.stderr you can see the reason it has failed:
>>>>>>
>>>>>> 2021-09-30 02:14:42.492074: W
>>>>>> tensorflow/stream_executor/platform/default/dso_loader.cc:64] Could not
>>>>>> load dynamic library 'libcudnn.so.8'; dlerror: libcudnn.so.8: cannot open
>>>>>> shared object file: No such file or directory; LD_LIBRARY_PATH:
>>>>>> /usr/local/cuda/lib64::/home/impmc/scipion/software/lib
>>>>>>
>>>>>> For some reason it's looking for libcudnn.so.8 but the cryolo package
>>>>>> should have installed libcudnn.so.7.1.2 for you. Can you check that
>>>>>> a) you do have libcudnn8 in cryolo-1.7.6 environment lib folder? I
>>>>>> dont know where is your env is installed. You can activate conda and "check
>>>>>> conda list env"
>>>>>> b) /home/impmc/.local/bin/cryolo_train.py does not look like a
>>>>>> correct path for cryolo env. The previous command should tell you where it
>>>>>> should be
>>>>>>
>>>>>> In general, my advice would be to not use eman2 conda for anything
>>>>>> except eman. You'd be better off using a separate miniconda3 installation.
>>>>>> Which conda did you use for cryolo 1.8? From eman?
>>>>>>
>>>>>> Best regards,
>>>>>> Grigory
>>>>>>
>>>>>>
>>>>>> --------------------------------------------------------------------------------
>>>>>> Grigory Sharov, Ph.D.
>>>>>>
>>>>>> MRC Laboratory of Molecular Biology,
>>>>>> Francis Crick Avenue,
>>>>>> Cambridge Biomedical Campus,
>>>>>> Cambridge CB2 0QH, UK.
>>>>>> tel. +44 (0) 1223 267228 <+44%201223%20267228>
>>>>>> e-mail: gs...@mr...
>>>>>>
>>>>>>
>>>>>> On Wed, Sep 29, 2021 at 5:37 PM Carlos HENRIQUE FERNANDES <
>>>>>> car...@so...> wrote:
>>>>>>
>>>>>>> Dear Grigory,
>>>>>>>
>>>>>>> The files that you requested are attached.
>>>>>>> Thanks so much again
>>>>>>>
>>>>>>> ------------------------------
>>>>>>> *From: *"Grigory Sharov" <sha...@gm...>
>>>>>>> *To: *"scipion-users" <sci...@li...>
>>>>>>> *Sent: *Wednesday, September 29, 2021 6:18:12 PM
>>>>>>> *Subject: *Re: [scipion-users] Problems with CONDA_ACTIVATION_CMD
>>>>>>> using Cryolo
>>>>>>>
>>>>>>> Hi,
>>>>>>> The config files look ok. Could you attach run.stderr and run.stdout
>>>>>>> for the failed protocol?
>>>>>>>
>>>>>>> Best regards,
>>>>>>> Grigory
>>>>>>>
>>>>>>>
>>>>>>> --------------------------------------------------------------------------------
>>>>>>> Grigory Sharov, Ph.D.
>>>>>>>
>>>>>>> MRC Laboratory of Molecular Biology,
>>>>>>> Francis Crick Avenue,
>>>>>>> Cambridge Biomedical Campus,
>>>>>>> Cambridge CB2 0QH, UK.
>>>>>>> tel. +44 (0) 1223 267228 <+44%201223%20267228>
>>>>>>> e-mail: gs...@mr...
>>>>>>>
>>>>>>>
>>>>>>> On Wed, Sep 29, 2021 at 5:15 PM Carlos HENRIQUE FERNANDES <
>>>>>>> car...@so...> wrote:
>>>>>>>
>>>>>>>> Dear Grigory,
>>>>>>>>
>>>>>>>> Thank you so much, fixing this space solved the problem with
>>>>>>>> cryolo_1.7.6_installing (shame on me for this).
>>>>>>>> However, I tried to run the cryolo training and I obtained the same
>>>>>>>> previous error:
>>>>>>>>
>>>>>>>> eval "$(/home/impmc/eman2-sphire-sparx/bin/conda shell.bash hook 2>
>>>>>>>> /dev/null)"&& conda activate cryolo-1.7.6 && cryolo_train.py -c config.json
>>>>>>>> -w 5 -g 0 1 -nc 4 -e 10  --fine_tune
>>>>>>>> 00022:   Protocol failed: Command ' eval
>>>>>>>> "$(/home/impmc/eman2-sphire-sparx/bin/conda shell.bash hook 2>
>>>>>>>> /dev/null)"&& conda activate cryolo-1.7.6 && cryolo_train.py -c config.json
>>>>>>>> -w 5 -g 0 1 -nc 4 -e 10  --fine_tune' returned non-zero exit status 1.
>>>>>>>> 00023:   FAILED: cryoloModelingStep, step 3, time 2021-09-30
>>>>>>>> 02:14:42.822982
>>>>>>>>
>>>>>>>> Bellow, it is my current scipion.conf file
>>>>>>>> [PYWORKFLOW]
>>>>>>>> SCIPION_DOMAIN = pwem
>>>>>>>> SCIPION_FONT_NAME = Helvetica
>>>>>>>> SCIPION_GUI_REFRESH_IN_THREAD = False
>>>>>>>> SCIPION_LOG = ~/ScipionUserData/logs/scipion.log
>>>>>>>> SCIPION_LOGO = scipion_logo.gif
>>>>>>>> SCIPION_LOGS = ~/ScipionUserData/logs
>>>>>>>> SCIPION_NOTES_FILE = notes.txt
>>>>>>>> SCIPION_NOTIFY = True
>>>>>>>> SCIPION_PLUGIN_REPO_URL = http://scipion.i2pc.es/getplugins/
>>>>>>>> SCIPION_SOFTWARE = ${SCIPION_HOME}/software
>>>>>>>> SCIPION_SUPPORT_EMAIL = sc...@cn...
>>>>>>>> SCIPION_TESTS = ${SCIPION_HOME}/data/tests
>>>>>>>> SCIPION_TESTS_CMD = scipion3 tests
>>>>>>>> SCIPION_TESTS_OUTPUT = ~/ScipionUserData/Tests
>>>>>>>> SCIPION_TMP = ~/ScipionUserData/tmp
>>>>>>>> SCIPION_URL = http://scipion.cnb.csic.es/downloads/scipion
>>>>>>>> SCIPION_URL_SOFTWARE =
>>>>>>>> http://scipion.cnb.csic.es/downloads/scipion/software
>>>>>>>> SCIPION_URL_TESTDATA =
>>>>>>>> http://scipion.cnb.csic.es/downloads/scipion/data/tests
>>>>>>>> SCIPION_USER_DATA = ~/ScipionUserData
>>>>>>>> WIZARD_MASK_COLOR = [0.125, 0.909, 0.972]
>>>>>>>> CONDA_ACTIVATION_CMD = eval
>>>>>>>> "$(/home/impmc/eman2-sphire-sparx/bin/conda shell.bash hook 2> /dev/null)"
>>>>>>>>
>>>>>>>> [PLUGINS]
>>>>>>>> CCP4_HOME = %(EM_ROOT)s/ccp4-7.0.056
>>>>>>>> CHIMERA_HOME = %(EM_ROOT)s/chimerax-1.2.5
>>>>>>>> CISTEM_HOME = %(EM_ROOT)s/cistem-1.0.0-beta
>>>>>>>> CRYOLO_CUDA_LIB = /usr/local/cuda/lib64
>>>>>>>> CRYOLO_ENV_ACTIVATION = conda activate cryolo-1.7.6
>>>>>>>> CRYOLO_ENV_ACTIVATION_CPU = conda activate cryolo-1.7.6
>>>>>>>> CRYOLO_GENERIC_DENOISED_MODEL =
>>>>>>>> %(EM_ROOT)s/cryolo_model-202005_nn_N63_c17/gmodel_phosnet_202005_nn_N63_c17.h5
>>>>>>>> CRYOLO_GENERIC_MODEL =
>>>>>>>> %(EM_ROOT)s/cryolo_model-202005_N63_c17/gmodel_phosnet_202005_N63_c17.h5
>>>>>>>> CRYOLO_NS_GENERIC_MODEL =
>>>>>>>> %(EM_ROOT)s/cryolo_negstain_model-20190226/gmodel_phosnet_negstain_20190226.h5
>>>>>>>> CRYOSPARC_HOME = /home/impmc/
>>>>>>>> CRYO_PROJECTS_DIR = scipion_projects
>>>>>>>> CTFFIND4_HOME = %(EM_ROOT)s/ctffind4-4.1.14
>>>>>>>> EMAN2SCRATCHDIR = /tmp
>>>>>>>> EMAN2_HOME = %(EM_ROOT)s/eman-2.91
>>>>>>>> EM_ROOT = software/em
>>>>>>>> JANNI_GENERIC_MODEL =
>>>>>>>> %(EM_ROOT)s/janni_model-20190703/gmodel_janni_20190703.h5
>>>>>>>> MAXIT_HOME = %(EM_ROOT)s/maxit-10.1
>>>>>>>> MOTIONCOR2_BIN = MotionCor2_1.4.0_Cuda101
>>>>>>>> MOTIONCOR2_CUDA_LIB = /usr/local/cuda/lib64
>>>>>>>> MOTIONCOR2_HOME = %(EM_ROOT)s/motioncor2-1.4.0
>>>>>>>> PHENIX_HOME = %(EM_ROOT)s/phenix-
>>>>>>>> RELION_CUDA_LIB = /usr/local/cuda/lib64
>>>>>>>> RELION_HOME = %(EM_ROOT)s/relion-3.1.2
>>>>>>>> XMIPP2_HOME = %(EM_ROOT)s/Xmipp-2.4-src
>>>>>>>> XMIPP_HOME = %(EM_ROOT)s/xmipp
>>>>>>>>
>>>>>>>>
>>>>>>>> Thanks again.
>>>>>>>>
>>>>>>>> ------------------------------
>>>>>>>> *From: *"Grigory Sharov" <sha...@gm...>
>>>>>>>> *To: *"scipion-users" <sci...@li...>
>>>>>>>> *Sent: *Wednesday, September 29, 2021 5:51:06 PM
>>>>>>>> *Subject: *Re: [scipion-users] Problems with CONDA_ACTIVATION_CMD
>>>>>>>> using Cryolo
>>>>>>>>
>>>>>>>> Hello Carlos,
>>>>>>>>
>>>>>>>> to start, you are missing a space between eval and the rest in:
>>>>>>>> CONDA_ACTIVATION_CMD = eval "$(/home/impmc/eman2-sphire-sparx/bin/conda
>>>>>>>> shell.bash hook)"
>>>>>>>>
>>>>>>>> Best regards,
>>>>>>>> Grigory
>>>>>>>>
>>>>>>>>
>>>>>>>> --------------------------------------------------------------------------------
>>>>>>>> Grigory Sharov, Ph.D.
>>>>>>>>
>>>>>>>> MRC Laboratory of Molecular Biology,
>>>>>>>> Francis Crick Avenue,
>>>>>>>> Cambridge Biomedical Campus,
>>>>>>>> Cambridge CB2 0QH, UK.
>>>>>>>> tel. +44 (0) 1223 267228 <+44%201223%20267228>
>>>>>>>> e-mail: gs...@mr...
>>>>>>>>
>>>>>>>>
>>>>>>>> On Wed, Sep 29, 2021 at 4:47 PM Carlos HENRIQUE FERNANDES <
>>>>>>>> car...@so...> wrote:
>>>>>>>>
>>>>>>>>> Dear Grigory,
>>>>>>>>>
>>>>>>>>> Thanks for the message. The all output is bellow:
>>>>>>>>>
>>>>>>>>> Scipion v3.0.9 - Eugenius
>>>>>>>>> Building scipion-em-sphire ...
>>>>>>>>> /home/impmc/scipion/.scipion3/bin/python -m pip install
>>>>>>>>> scipion-em-sphire==3.0.7
>>>>>>>>> Looking in indexes: https://pypi.org/simple,
>>>>>>>>> https://pypi.ngc.nvidia.com
>>>>>>>>> Requirement already satisfied: scipion-em-sphire==3.0.7 in
>>>>>>>>> ./scipion/.scipion3/lib/python3.8/site-packages (3.0.7)
>>>>>>>>> Requirement already satisfied: scipion-em in
>>>>>>>>> ./scipion/.scipion3/lib/python3.8/site-packages (from
>>>>>>>>> scipion-em-sphire==3.0.7) (3.0.13)
>>>>>>>>> Requirement already satisfied: biopython==1.76 in
>>>>>>>>> ./scipion/.scipion3/lib/python3.8/site-packages (from
>>>>>>>>> scipion-em->scipion-em-sphire==3.0.7) (1.76)
>>>>>>>>> Requirement already satisfied: tifffile in
>>>>>>>>> ./scipion/.scipion3/lib/python3.8/site-packages (from
>>>>>>>>> scipion-em->scipion-em-sphire==3.0.7) (2021.4.8)
>>>>>>>>> Requirement already satisfied: scipion-pyworkflow>=3.0.15 in
>>>>>>>>> ./scipion/.scipion3/lib/python3.8/site-packages (from
>>>>>>>>> scipion-em->scipion-em-sphire==3.0.7) (3.0.17)
>>>>>>>>> Requirement already satisfied: numpy in
>>>>>>>>> ./scipion/.scipion3/lib/python3.8/site-packages (from
>>>>>>>>> biopython==1.76->scipion-em->scipion-em-sphire==3.0.7) (1.18.4)
>>>>>>>>> Requirement already satisfied: mpi4py<=3.0.3 in
>>>>>>>>> ./scipion/.scipion3/lib/python3.8/site-packages (from
>>>>>>>>> scipion-pyworkflow>=3.0.15->scipion-em->scipion-em-sphire==3.0.7) (3.0.3)
>>>>>>>>> Requirement already satisfied: configparser<=5.0.2 in
>>>>>>>>> ./scipion/.scipion3/lib/python3.8/site-packages (from
>>>>>>>>> scipion-pyworkflow>=3.0.15->scipion-em->scipion-em-sphire==3.0.7) (5.0.0)
>>>>>>>>> Requirement already satisfied: psutil<=5.8.0 in
>>>>>>>>> ./scipion/.scipion3/lib/python3.8/site-packages (from
>>>>>>>>> scipion-pyworkflow>=3.0.15->scipion-em->scipion-em-sphire==3.0.7) (5.7.0)
>>>>>>>>> Requirement already satisfied: pillow<=8.2.0 in
>>>>>>>>> ./scipion/.scipion3/lib/python3.8/site-packages (from
>>>>>>>>> scipion-pyworkflow>=3.0.15->scipion-em->scipion-em-sphire==3.0.7) (7.1.2)
>>>>>>>>> Requirement already satisfied: bibtexparser<=1.2.0 in
>>>>>>>>> ./scipion/.scipion3/lib/python3.8/site-packages (from
>>>>>>>>> scipion-pyworkflow>=3.0.15->scipion-em->scipion-em-sphire==3.0.7) (1.2.0)
>>>>>>>>> Requirement already satisfied: requests<=2.25.1 in
>>>>>>>>> ./scipion/.scipion3/lib/python3.8/site-packages (from
>>>>>>>>> scipion-pyworkflow>=3.0.15->scipion-em->scipion-em-sphire==3.0.7) (2.25.1)
>>>>>>>>> Requirement already satisfied: matplotlib==3.2.2 in
>>>>>>>>> ./scipion/.scipion3/lib/python3.8/site-packages (from
>>>>>>>>> scipion-pyworkflow>=3.0.15->scipion-em->scipion-em-sphire==3.0.7) (3.2.2)
>>>>>>>>> Requirement already satisfied: tkcolorpicker<=2.1.3 in
>>>>>>>>> ./scipion/.scipion3/lib/python3.8/site-packages (from
>>>>>>>>> scipion-pyworkflow>=3.0.15->scipion-em->scipion-em-sphire==3.0.7) (2.1.3)
>>>>>>>>> Requirement already satisfied: cycler>=0.10 in
>>>>>>>>> ./scipion/.scipion3/lib/python3.8/site-packages (from
>>>>>>>>> matplotlib==3.2.2->scipion-pyworkflow>=3.0.15->scipion-em->scipion-em-sphire==3.0.7)
>>>>>>>>> (0.10.0)
>>>>>>>>> Requirement already satisfied: python-dateutil>=2.1 in
>>>>>>>>> ./scipion/.scipion3/lib/python3.8/site-packages (from
>>>>>>>>> matplotlib==3.2.2->scipion-pyworkflow>=3.0.15->scipion-em->scipion-em-sphire==3.0.7)
>>>>>>>>> (2.8.1)
>>>>>>>>> Requirement already satisfied:
>>>>>>>>> pyparsing!=2.0.4,!=2.1.2,!=2.1.6,>=2.0.1 in
>>>>>>>>> ./scipion/.scipion3/lib/python3.8/site-packages (from
>>>>>>>>> matplotlib==3.2.2->scipion-pyworkflow>=3.0.15->scipion-em->scipion-em-sphire==3.0.7)
>>>>>>>>> (2.4.7)
>>>>>>>>> Requirement already satisfied: kiwisolver>=1.0.1 in
>>>>>>>>> ./scipion/.scipion3/lib/python3.8/site-packages (from
>>>>>>>>> matplotlib==3.2.2->scipion-pyworkflow>=3.0.15->scipion-em->scipion-em-sphire==3.0.7)
>>>>>>>>> (1.3.1)
>>>>>>>>> Requirement already satisfied: future>=0.16.0 in
>>>>>>>>> ./scipion/.scipion3/lib/python3.8/site-packages (from
>>>>>>>>> bibtexparser<=1.2.0->scipion-pyworkflow>=3.0.15->scipion-em->scipion-em-sphire==3.0.7)
>>>>>>>>> (0.18.2)
>>>>>>>>> Requirement already satisfied: six in
>>>>>>>>> ./scipion/.scipion3/lib/python3.8/site-packages (from
>>>>>>>>> cycler>=0.10->matplotlib==3.2.2->scipion-pyworkflow>=3.0.15->scipion-em->scipion-em-sphire==3.0.7)
>>>>>>>>> (1.16.0)
>>>>>>>>> Requirement already satisfied: certifi>=2017.4.17 in
>>>>>>>>> ./scipion/.scipion3/lib/python3.8/site-packages (from
>>>>>>>>> requests<=2.25.1->scipion-pyworkflow>=3.0.15->scipion-em->scipion-em-sphire==3.0.7)
>>>>>>>>> (2020.12.5)
>>>>>>>>> Requirement already satisfied: urllib3<1.27,>=1.21.1 in
>>>>>>>>> ./scipion/.scipion3/lib/python3.8/site-packages (from
>>>>>>>>> requests<=2.25.1->scipion-pyworkflow>=3.0.15->scipion-em->scipion-em-sphire==3.0.7)
>>>>>>>>> (1.26.4)
>>>>>>>>> Requirement already satisfied: chardet<5,>=3.0.2 in
>>>>>>>>> ./scipion/.scipion3/lib/python3.8/site-packages (from
>>>>>>>>> requests<=2.25.1->scipion-pyworkflow>=3.0.15->scipion-em->scipion-em-sphire==3.0.7)
>>>>>>>>> (4.0.0)
>>>>>>>>> Requirement already satisfied: idna<3,>=2.5 in
>>>>>>>>> ./scipion/.scipion3/lib/python3.8/site-packages (from
>>>>>>>>> requests<=2.25.1->scipion-pyworkflow>=3.0.15->scipion-em->scipion-em-sphire==3.0.7)
>>>>>>>>> (2.10)
>>>>>>>>> Done (0.84 seconds)
>>>>>>>>> Building cryolo-1.7.6 ...
>>>>>>>>>   Skipping command: wget -nv -c -O
>>>>>>>>> /home/impmc/scipion/software/em/void.tgz.part
>>>>>>>>> http://scipion.cnb.csic.es/downloads/scipion/software/em/void.tgz
>>>>>>>>> mv -v /home/impmc/scipion/software/em/void.tgz.part
>>>>>>>>> /home/impmc/scipion/software/em/void.tgz
>>>>>>>>>   All targets exist.
>>>>>>>>>   Skipping command: mkdir
>>>>>>>>> /home/impmc/scipion/software/em/cryolo-1.7.6
>>>>>>>>>   All targets exist.
>>>>>>>>>   Skipping command: tar -xf void.tgz -C cryolo-1.7.6
>>>>>>>>>   All targets exist.
>>>>>>>>> cd /home/impmc/scipion/software/em/cryolo-1.7.6
>>>>>>>>> eval"$(/home/impmc/eman2-sphire-sparx/bin/conda shell.bash hook 2>
>>>>>>>>> /dev/null)"&&conda create -y -n cryolo-1.7.6 -c conda-forge -c anaconda
>>>>>>>>> python=3.6 pyqt=5 cudnn=7.1.2 numpy==1.14.5 cython wxPython==4.0.4
>>>>>>>>> intel-openmp==2019.4 &&conda activate cryolo-1.7.6 &&pip install
>>>>>>>>> cryolo[gpu]==1.7.6 &&touch cryolo_1.7.6_installed
>>>>>>>>> /bin/sh: 1: evalexport
>>>>>>>>> CONDA_EXE='/home/impmc/eman2-sphire-sparx/bin/conda'
>>>>>>>>> export _CE_M=''
>>>>>>>>> export _CE_CONDA=''
>>>>>>>>> export CONDA_PYTHON_EXE='/home/impmc/eman2-sphire-sparx/bin/python'
>>>>>>>>>
>>>>>>>>> # Copyright (C) 2012 Anaconda, Inc
>>>>>>>>> # SPDX-License-Identifier: BSD-3-Clause
>>>>>>>>>
>>>>>>>>> __add_sys_prefix_to_path() {
>>>>>>>>>     # In dev-mode CONDA_EXE is python.exe and on Windows
>>>>>>>>>     # it is in a different relative location to condabin.
>>>>>>>>>     if [ -n "${_CE_CONDA}" ] && [ -n "${WINDIR+x}" ]; then
>>>>>>>>>         SYSP=$(\dirname "${CONDA_EXE}")
>>>>>>>>>     else
>>>>>>>>>         SYSP=$(\dirname "${CONDA_EXE}")
>>>>>>>>>         SYSP=$(\dirname "${SYSP}")
>>>>>>>>>     fi
>>>>>>>>>
>>>>>>>>>     if [ -n "${WINDIR+x}" ]; then
>>>>>>>>>         PATH="${SYSP}/bin:${PATH}"
>>>>>>>>>         PATH="${SYSP}/Scripts:${PATH}"
>>>>>>>>>         PATH="${SYSP}/Library/bin:${PATH}"
>>>>>>>>>         PATH="${SYSP}/Library/usr/bin:${PATH}"
>>>>>>>>>         PATH="${SYSP}/Library/mingw-w64/bin:${PATH}"
>>>>>>>>>         PATH="${SYSP}:${PATH}"
>>>>>>>>>     else
>>>>>>>>>         PATH="${SYSP}/bin:${PATH}"
>>>>>>>>>     fi
>>>>>>>>>     \export PATH
>>>>>>>>> }
>>>>>>>>>
>>>>>>>>> __conda_exe() (
>>>>>>>>>     __add_sys_prefix_to_path
>>>>>>>>>     "$CONDA_EXE" $_CE_M $_CE_CONDA "$@"
>>>>>>>>> )
>>>>>>>>>
>>>>>>>>> __conda_hashr() {
>>>>>>>>>     if [ -n "${ZSH_VERSION:+x}" ]; then
>>>>>>>>>         \rehash
>>>>>>>>>     elif [ -n "${POSH_VERSION:+x}" ]; then
>>>>>>>>>         :  # pass
>>>>>>>>>     else
>>>>>>>>>         \hash -r
>>>>>>>>>     fi
>>>>>>>>> }
>>>>>>>>>
>>>>>>>>> __conda_activate() {
>>>>>>>>>     if [ -n "${CONDA_PS1_BACKUP:+x}" ]; then
>>>>>>>>>         # Handle transition from shell activated with conda <= 4.3
>>>>>>>>> to a subsequent activation
>>>>>>>>>         # after conda updated to >= 4.4. See issue #6173.
>>>>>>>>>         PS1="$CONDA_PS1_BACKUP"
>>>>>>>>>         \unset CONDA_PS1_BACKUP
>>>>>>>>>     fi
>>>>>>>>>     \local ask_conda
>>>>>>>>>     ask_conda="$(PS1="${PS1:-}" __conda_exe shell.posix "$@")" ||
>>>>>>>>> \return
>>>>>>>>>     \eval "$ask_conda"
>>>>>>>>>     __conda_hashr
>>>>>>>>> }
>>>>>>>>>
>>>>>>>>> __conda_reactivate() {
>>>>>>>>>     \local ask_conda
>>>>>>>>>     ask_conda="$(PS1="${PS1:-}" __conda_exe shell.posix
>>>>>>>>> reactivate)" || \return
>>>>>>>>>     \eval "$ask_conda"
>>>>>>>>>     __conda_hashr
>>>>>>>>> }
>>>>>>>>>
>>>>>>>>> conda() {
>>>>>>>>>     \local cmd="${1-__missing__}"
>>>>>>>>>     case "$cmd" in
>>>>>>>>>         activate|deactivate)
>>>>>>>>>             __conda_activate "$@"
>>>>>>>>>             ;;
>>>>>>>>>         install|update|upgrade|remove|uninstall)
>>>>>>>>>             __conda_exe "$@" || \return
>>>>>>>>>             __conda_reactivate
>>>>>>>>>             ;;
>>>>>>>>>         *)
>>>>>>>>>             __conda_exe "$@"
>>>>>>>>>             ;;
>>>>>>>>>     esac
>>>>>>>>> }
>>>>>>>>>
>>>>>>>>> if [ -z "${CONDA_SHLVL+x}" ]; then
>>>>>>>>>     \export CONDA_SHLVL=0
>>>>>>>>>     # In dev-mode CONDA_EXE is python.exe and on Windows
>>>>>>>>>     # it is in a different relative location to condabin.
>>>>>>>>>     if [ -n "${_CE_CONDA:+x}" ] && [ -n "${WINDIR+x}" ]; then
>>>>>>>>>         PATH="$(\dirname "$CONDA_EXE")/condabin${PATH:+":${PATH}"}"
>>>>>>>>>     else
>>>>>>>>>         PATH="$(\dirname "$(\dirname
>>>>>>>>> "$CONDA_EXE")")/condabin${PATH:+":${PATH}"}"
>>>>>>>>>     fi
>>>>>>>>>     \export PATH
>>>>>>>>>
>>>>>>>>>     # We're not allowing PS1 to be unbound. It must at least be
>>>>>>>>> set.
>>>>>>>>>     # However, we're not exporting it, which can cause problems
>>>>>>>>> when starting a second shell
>>>>>>>>>     # via a first shell (i.e. starting zsh from bash).
>>>>>>>>>     if [ -z "${PS1+x}" ]; then
>>>>>>>>>         PS1=
>>>>>>>>>     fi
>>>>>>>>> fi
>>>>>>>>>
>>>>>>>>> conda activate base: not found
>>>>>>>>> Traceback (most recent call last):
>>>>>>>>>   File
>>>>>>>>> "/home/impmc/scipion/.scipion3/lib/python3.8/site-packages/scipion/__main__.py",
>>>>>>>>> line 470, in <module>
>>>>>>>>>     main()
>>>>>>>>>   File
>>>>>>>>> "/home/impmc/scipion/.scipion3/lib/python3.8/site-packages/scipion/__main__.py",
>>>>>>>>> line 293, in main
>>>>>>>>>     installPluginMethods()
>>>>>>>>>   File
>>>>>>>>> "/home/impmc/scipion/.scipion3/lib/python3.8/site-packages/scipion/install/install_plugin.py",
>>>>>>>>> line 232, in installPluginMethods
>>>>>>>>>     plugin.installBin({'args': ['-j', numberProcessor]})
>>>>>>>>>   File
>>>>>>>>> "/home/impmc/scipion/.scipion3/lib/python3.8/site-packages/scipion/install/plugin_funcs.py",
>>>>>>>>> line 166, in installBin
>>>>>>>>>     environment.execute()
>>>>>>>>>   File
>>>>>>>>> "/home/impmc/scipion/.scipion3/lib/python3.8/site-packages/scipion/install/funcs.py",
>>>>>>>>> line 748, in execute
>>>>>>>>>     self._executeTargets(targetList)
>>>>>>>>>   File
>>>>>>>>> "/home/impmc/scipion/.scipion3/lib/python3.8/site-packages/scipion/install/funcs.py",
>>>>>>>>> line 690, in _executeTargets
>>>>>>>>>     tgt.execute()
>>>>>>>>>   File
>>>>>>>>> "/home/impmc/scipion/.scipion3/lib/python3.8/site-packages/scipion/install/funcs.py",
>>>>>>>>> line 221, in execute
>>>>>>>>>     command.execute()
>>>>>>>>>   File
>>>>>>>>> "/home/impmc/scipion/.scipion3/lib/python3.8/site-packages/scipion/install/funcs.py",
>>>>>>>>> line 161, in execute
>>>>>>>>>     assert glob(t), ("target '%s' not built (after "
>>>>>>>>> AssertionError: target
>>>>>>>>> '/home/impmc/scipion/software/em/cryolo-1.7.6/cryolo_1.7.6_installed' not
>>>>>>>>> built (after running 'eval"$(/home/impmc/eman2-sphire-sparx/bin/conda
>>>>>>>>> shell.bash hook 2> /dev/null)"&&conda create -y -n cryolo-1.7.6 -c
>>>>>>>>> conda-forge -c anaconda python=3.6 pyqt=5 cudnn=7.1.2 numpy==1.14.5 cython
>>>>>>>>> wxPython==4.0.4 intel-openmp==2019.4 &&conda activate cryolo-1.7.6 &&pip
>>>>>>>>> install cryolo[gpu]==1.7.6 &&touch cryolo_1.7.6_installed')
>>>>>>>>> Error at main: target
>>>>>>>>> '/home/impmc/scipion/software/em/cryolo-1.7.6/cryolo_1.7.6_installed' not
>>>>>>>>> built (after running 'eval"$(/home/impmc/eman2-sphire-sparx/bin/conda
>>>>>>>>> shell.bash hook 2> /dev/null)"&&conda create -y -n cryolo-1.7.6 -c
>>>>>>>>> conda-forge -c anaconda python=3.6 pyqt=5 cudnn=7.1.2 numpy==1.14.5 cython
>>>>>>>>> wxPython==4.0.4 intel-openmp==2019.4 &&conda activate cryolo-1.7.6 &&pip
>>>>>>>>> install cryolo[gpu]==1.7.6 &&touch cryolo_1.7.6_installed')
>>>>>>>>>
>>>>>>>>> ------------------------------
>>>>>>>>> *From: *"Grigory Sharov" <sha...@gm...>
>>>>>>>>> *To: *"scipion-users" <sci...@li...>
>>>>>>>>> *Sent: *Wednesday, September 29, 2021 5:33:09 PM
>>>>>>>>> *Subject: *Re: [scipion-users] Problems with CONDA_ACTIVATION_CMD
>>>>>>>>> using Cryolo
>>>>>>>>>
>>>>>>>>> Dear Carlos,
>>>>>>>>> given the fact that the installation has failed, could you attach
>>>>>>>>> all output after "scipion3 installp -p scipion-em-sphire" command?
>>>>>>>>>
>>>>>>>>> Best regards,
>>>>>>>>> Grigory
>>>>>>>>>
>>>>>>>>>
>>>>>>>>> --------------------------------------------------------------------------------
>>>>>>>>> Grigory Sharov, Ph.D.
>>>>>>>>>
>>>>>>>>> MRC Laboratory of Molecular Biology,
>>>>>>>>> Francis Crick Avenue,
>>>>>>>>> Cambridge Biomedical Campus,
>>>>>>>>> Cambridge CB2 0QH, UK.
>>>>>>>>> tel. +44 (0) 1223 267228 <+44%201223%20267228>
>>>>>>>>> e-mail: gs...@mr...
>>>>>>>>>
>>>>>>>>>
>>>>>>>>> On Wed, Sep 29, 2021 at 4:03 PM Carlos HENRIQUE FERNANDES <
>>>>>>>>> car...@so...> wrote:
>>>>>>>>>
>>>>>>>>>> Dear all,
>>>>>>>>>>
>>>>>>>>>> I'm facing some problems using cryolo training at Scipion.
>>>>>>>>>> I found the following error:
>>>>>>>>>>
>>>>>>>>>> *Protocol failed: Command ' source
>>>>>>>>>> /home/impmc/eman2-sphire-sparx/etc/profile.d/conda.sh&& conda activate
>>>>>>>>>> cryolo-1.7.6 && cryolo_train.py -c config.json -w 5 -g 0 -nc 4 -e 10
>>>>>>>>>> --fine_tune' returned non-zero exit status 127. *
>>>>>>>>>>
>>>>>>>>>> I saw some discussion about that at Scipion lists, but I'm still
>>>>>>>>>> little lost in how to fix it.
>>>>>>>>>> In my scipion.conf file, I inserted
>>>>>>>>>> *CONDA_ACTIVATION_CMD = source
>>>>>>>>>> /home/impmc/eman2-sphire-sparx/etc/profile.d/conda.sh *
>>>>>>>>>> or even
>>>>>>>>>> CONDA_ACTIVATION_CMD =
>>>>>>>>>> eval"$(/home/impmc/eman2-sphire-sparx/bin/conda shell.bash hook)"
>>>>>>>>>> (I saw these pathways in my bash.rc)
>>>>>>>>>>
>>>>>>>>>> Moreover, when I try to install cryolo using command line
>>>>>>>>>> (scipion3 installp -p scipion-em-sphire), the following error apears:
>>>>>>>>>> *AssertionError: target
>>>>>>>>>> '/home/impmc/scipion/software/em/cryolo-1.7.6/cryolo_1.7.6_installed' not
>>>>>>>>>> built (after running 'source
>>>>>>>>>> /home/impmc/eman2-sphire-sparx/etc/profile.d/conda.sh&&conda create -y -n
>>>>>>>>>> cryolo-1.7.6 -c conda-forge -c anaconda python=3.6 pyqt=5 cudnn=7.1.2
>>>>>>>>>> numpy==1.14.5 cython wxPython==4.0.4 intel-openmp==2019.4 &&conda activate
>>>>>>>>>> cryolo-1.7.6 &&pip install cryolo[gpu]==1.7.6 &&touch
>>>>>>>>>> cryolo_1.7.6_installed')*
>>>>>>>>>>
>>>>>>>>>> I am not sure if these errors are related and hinder performing
>>>>>>>>>> cryolo in Scipion.
>>>>>>>>>> I have conda installed in the computer and I'm able to use cryolo
>>>>>>>>>> 1.8 outside from Scipion in the same computer (using *source
>>>>>>>>>> activate cryolo *command).
>>>>>>>>>>
>>>>>>>>>> Anyone know what I'm doing wrong?
>>>>>>>>>> Thanks in advance,
>>>>>>>>>> Carlos.
>>>>>>>>>>
>>>>>>>>>>
>>>>>>>>>> _______________________________________________
>>>>>>>>>> scipion-users mailing list
>>>>>>>>>> sci...@li...
>>>>>>>>>> https://lists.sourceforge.net/lists/listinfo/scipion-users
>>>>>>>>>>
>>>>>>>>>
>>>>>>>>>
>>>>>>>>> _______________________________________________
>>>>>>>>> scipion-users mailing list
>>>>>>>>> sci...@li...
>>>>>>>>> https://lists.sourceforge.net/lists/listinfo/scipion-users
>>>>>>>>> _______________________________________________
>>>>>>>>> scipion-users mailing list
>>>>>>>>> sci...@li...
>>>>>>>>> https://lists.sourceforge.net/lists/listinfo/scipion-users
>>>>>>>>>
>>>>>>>>
>>>>>>>>
>>>>>>>> _______________________________________________
>>>>>>>> scipion-users mailing list
>>>>>>>> sci...@li...
>>>>>>>> https://lists.sourceforge.net/lists/listinfo/scipion-users
>>>>>>>> _______________________________________________
>>>>>>>> scipion-users mailing list
>>>>>>>> sci...@li...
>>>>>>>> https://lists.sourceforge.net/lists/listinfo/scipion-users
>>>>>>>>
>>>>>>>
>>>>>>>
>>>>>>> _______________________________________________
>>>>>>> scipion-users mailing list
>>>>>>> sci...@li...
>>>>>>> https://lists.sourceforge.net/lists/listinfo/scipion-users
>>>>>>> _______________________________________________
>>>>>>> scipion-users mailing list
>>>>>>> sci...@li...
>>>>>>> https://lists.sourceforge.net/lists/listinfo/scipion-users
>>>>>>>
>>>>>>
>>>>>>
>>>>>> _______________________________________________
>>>>>> scipion-users mailing lis...@li...https://lists.sourceforge.net/lists/listinfo/scipion-users
>>>>>>
>>>>>> --
>>>>>> Pablo Conesa - *Madrid Scipion <http://scipion.i2pc.es> team*
>>>>>>
>>>>>>
>>>>>> _______________________________________________
>>>>>> scipion-users mailing list
>>>>>> sci...@li...
>>>>>> https://lists.sourceforge.net/lists/listinfo/scipion-users
>>>>>> _______________________________________________
>>>>>> scipion-users mailing list
>>>>>> sci...@li...
>>>>>> https://lists.sourceforge.net/lists/listinfo/scipion-users
>>>>>>
>>>>>
>>>>>
>>>>> _______________________________________________
>>>>> scipion-users mailing list
>>>>> sci...@li...
>>>>> https://lists.sourceforge.net/lists/listinfo/scipion-users
>>>>> _______________________________________________
>>>>> scipion-users mailing list
>>>>> sci...@li...
>>>>> https://lists.sourceforge.net/lists/listinfo/scipion-users
>>>>>
>>>>
>>>>
>>>> _______________________________________________
>>>> scipion-users mailing list
>>>> sci...@li...
>>>> https://lists.sourceforge.net/lists/listinfo/scipion-users
>>>> _______________________________________________
>>>> scipion-users mailing list
>>>> sci...@li...
>>>> https://lists.sourceforge.net/lists/listinfo/scipion-users
>>>>
>>>
>>>
>>> _______________________________________________
>>> scipion-users mailing list
>>> sci...@li...
>>> https://lists.sourceforge.net/lists/listinfo/scipion-users
>>> _______________________________________________
>>> scipion-users mailing list
>>> sci...@li...
>>> https://lists.sourceforge.net/lists/listinfo/scipion-users
>>>
>>
>>
>> _______________________________________________
>> scipion-users mailing list
>> sci...@li...
>> https://lists.sourceforge.net/lists/listinfo/scipion-users
>> _______________________________________________
>> scipion-users mailing list
>> sci...@li...
>> https://lists.sourceforge.net/lists/listinfo/scipion-users
>>
>
>
> _______________________________________________
> scipion-users mailing list
> sci...@li...
> https://lists.sourceforge.net/lists/listinfo/scipion-users
> _______________________________________________
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> sci...@li...
> https://lists.sourceforge.net/lists/listinfo/scipion-users
>

Re: [scipion-users] Problems with CONDA_ACTIVATION_CMD using Cryolo

Image processing framework to integrate EM software packages.

Re: [scipion-users] Problems with CONDA_ACTIVATION_CMD using Cryolo