scipion-em/scipion-em-empiar

A Scipion plugin to make depositions to EMPIAR

Scipion Empiar Depositor

This project is a Scipion plugin to make depositions to https://www.ebi.ac.uk/pdbe/emdb/empiar

Setup

In order to install the plugin follow these instructions:

1. Install this plugin:

scipion installp -p scipion-em-empiar

or through the plugin manager by launching Scipion and following Configuration >> Plugins

Alternatively, in devel mode:

git clone https://github.com/scipion-em/scipion-em-empiar.git
scipion installp -p local/path/to/scipion-em-empiar --devel

2. Download Aspera Connect:

Go to https://www.ibm.com/aspera/connect/ and download the latest version.

3. Register an account in the EMPIAR deposition and Segmentation Annotation Tool

Go to https://www.ebi.ac.uk/pdbe/emdb/empiar/deposition/register/ and get an API token at Get empiar-deposition API token section

4. Open scipion's config file 'scipion3 config --show' and add the following variables:

ASCP = <aspera_binary_path> (usually it is located at $HOME/.aspera/connect/bin/ascp)
ASPERA_SCP_PASS= <aspera_shares_user_password>
EMPIAR_TOKEN = <empiar_token>

scipion-em-empiar's Issues

wrong install target?

gsharov@hal:/public/EM/Scipion/scipion-3.0.0$ scipion3 installp -p scipion-em-empiar
Scipion v3.0.1 () devel
Building scipion-em-empiar ...
/public/EM/Scipion/miniconda3/envs/scipion3-public/bin/python -m pip install scipion-em-empiar==3.0.1
Requirement already satisfied: scipion-em-empiar==3.0.1 in /net/nfs1/public/EM/Scipion/miniconda3/envs/scipion3-public/lib/python3.8/site-packages (3.0.1)
Requirement already satisfied: empiar-depositor in /net/nfs1/public/EM/Scipion/miniconda3/envs/scipion3-public/lib/python3.8/site-packages (from scipion-em-empiar==3.0.1) (1.6b20)
Requirement already satisfied: scipion-em in ./scipion-em (from scipion-em-empiar==3.0.1) (3.0.3)
Requirement already satisfied: jsonschema in /net/nfs1/public/EM/Scipion/miniconda3/envs/scipion3-public/lib/python3.8/site-packages (from scipion-em-empiar==3.0.1) (3.2.0)
Requirement already satisfied: requests in /net/nfs1/public/EM/Scipion/miniconda3/envs/scipion3-public/lib/python3.8/site-packages (from empiar-depositor->scipion-em-empiar==3.0.1) (2.23.0)
Requirement already satisfied: scipion-pyworkflow in ./scipion-pyworkflow (from scipion-em->scipion-em-empiar==3.0.1) (3.0.4)
Requirement already satisfied: biopython==1.76 in /net/nfs1/public/EM/Scipion/miniconda3/envs/scipion3-public/lib/python3.8/site-packages (from scipion-em->scipion-em-empiar==3.0.1) (1.76)
Requirement already satisfied: setuptools in /net/nfs1/public/EM/Scipion/miniconda3/envs/scipion3-public/lib/python3.8/site-packages (from jsonschema->scipion-em-empiar==3.0.1) (49.6.0.post20200814)
Requirement already satisfied: six>=1.11.0 in /net/nfs1/public/EM/Scipion/miniconda3/envs/scipion3-public/lib/python3.8/site-packages (from jsonschema->scipion-em-empiar==3.0.1) (1.15.0)
Requirement already satisfied: attrs>=17.4.0 in /net/nfs1/public/EM/Scipion/miniconda3/envs/scipion3-public/lib/python3.8/site-packages (from jsonschema->scipion-em-empiar==3.0.1) (20.2.0)
Requirement already satisfied: pyrsistent>=0.14.0 in /net/nfs1/public/EM/Scipion/miniconda3/envs/scipion3-public/lib/python3.8/site-packages (from jsonschema->scipion-em-empiar==3.0.1) (0.17.3)
Requirement already satisfied: urllib3!=1.25.0,!=1.25.1,<1.26,>=1.21.1 in /net/nfs1/public/EM/Scipion/miniconda3/envs/scipion3-public/lib/python3.8/site-packages (from requests->empiar-depositor->scipion-em-empiar==3.0.1) (1.25.10)
Requirement already satisfied: certifi>=2017.4.17 in /net/nfs1/public/EM/Scipion/miniconda3/envs/scipion3-public/lib/python3.8/site-packages (from requests->empiar-depositor->scipion-em-empiar==3.0.1) (2020.6.20)
Requirement already satisfied: idna<3,>=2.5 in /net/nfs1/public/EM/Scipion/miniconda3/envs/scipion3-public/lib/python3.8/site-packages (from requests->empiar-depositor->scipion-em-empiar==3.0.1) (2.10)
Requirement already satisfied: chardet<4,>=3.0.2 in /net/nfs1/public/EM/Scipion/miniconda3/envs/scipion3-public/lib/python3.8/site-packages (from requests->empiar-depositor->scipion-em-empiar==3.0.1) (3.0.4)
Requirement already satisfied: bibtexparser<=1.2.0 in /net/nfs1/public/EM/Scipion/miniconda3/envs/scipion3-public/lib/python3.8/site-packages (from scipion-pyworkflow->scipion-em->scipion-em-empiar==3.0.1) (1.2.0)
Requirement already satisfied: psutil<=5.7.0 in /net/nfs1/public/EM/Scipion/miniconda3/envs/scipion3-public/lib/python3.8/site-packages (from scipion-pyworkflow->scipion-em->scipion-em-empiar==3.0.1) (5.7.0)
Requirement already satisfied: configparser<=5.0.0 in /net/nfs1/public/EM/Scipion/miniconda3/envs/scipion3-public/lib/python3.8/site-packages (from scipion-pyworkflow->scipion-em->scipion-em-empiar==3.0.1) (5.0.0)
Requirement already satisfied: matplotlib<=3.2.2 in /net/nfs1/public/EM/Scipion/miniconda3/envs/scipion3-public/lib/python3.8/site-packages (from scipion-pyworkflow->scipion-em->scipion-em-empiar==3.0.1) (3.2.2)
Requirement already satisfied: numpy<=1.18.4 in /net/nfs1/public/EM/Scipion/miniconda3/envs/scipion3-public/lib/python3.8/site-packages (from scipion-pyworkflow->scipion-em->scipion-em-empiar==3.0.1) (1.18.4)
Requirement already satisfied: pillow<=7.1.2 in /net/nfs1/public/EM/Scipion/miniconda3/envs/scipion3-public/lib/python3.8/site-packages (from scipion-pyworkflow->scipion-em->scipion-em-empiar==3.0.1) (7.1.2)
Requirement already satisfied: pyparsing>=2.0.3 in /net/nfs1/public/EM/Scipion/miniconda3/envs/scipion3-public/lib/python3.8/site-packages (from bibtexparser<=1.2.0->scipion-pyworkflow->scipion-em->scipion-em-empiar==3.0.1) (2.4.7)
Requirement already satisfied: future>=0.16.0 in /net/nfs1/public/EM/Scipion/miniconda3/envs/scipion3-public/lib/python3.8/site-packages (from bibtexparser<=1.2.0->scipion-pyworkflow->scipion-em->scipion-em-empiar==3.0.1) (0.18.2)
Requirement already satisfied: cycler>=0.10 in /net/nfs1/public/EM/Scipion/miniconda3/envs/scipion3-public/lib/python3.8/site-packages (from matplotlib<=3.2.2->scipion-pyworkflow->scipion-em->scipion-em-empiar==3.0.1) (0.10.0)
Requirement already satisfied: kiwisolver>=1.0.1 in /net/nfs1/public/EM/Scipion/miniconda3/envs/scipion3-public/lib/python3.8/site-packages (from matplotlib<=3.2.2->scipion-pyworkflow->scipion-em->scipion-em-empiar==3.0.1) (1.2.0)
Requirement already satisfied: python-dateutil>=2.1 in /net/nfs1/public/EM/Scipion/miniconda3/envs/scipion3-public/lib/python3.8/site-packages (from matplotlib<=3.2.2->scipion-pyworkflow->scipion-em->scipion-em-empiar==3.0.1) (2.8.1)
Done (1.57 seconds)
Building ascp-3.7.4 ...
wget -nv -c -O /public/EM/Scipion/scipion-3.0.0/software/em/ascp-3.7.4.tgz.part https://download.asperasoft.com/download/sw/connect/3.7.4/aspera-connect-3.7.4.147727-linux-64.tar.gz                                                                                                                                                                   
2020-09-17 22:33:20 URL:https://download.asperasoft.com/download/sw/connect/3.7.4/aspera-connect-3.7.4.147727-linux-64.tar.gz [35036098/35036098] -> "/public/EM/Scipion/scipion-3.0.0/software/em/ascp-3.7.4.tgz.part" [1]
mv -v /public/EM/Scipion/scipion-3.0.0/software/em/ascp-3.7.4.tgz.part /public/EM/Scipion/scipion-3.0.0/software/em/ascp-3.7.4.tgz
‘/public/EM/Scipion/scipion-3.0.0/software/em/ascp-3.7.4.tgz.part’ -> ‘/public/EM/Scipion/scipion-3.0.0/software/em/ascp-3.7.4.tgz’
cd /public/EM/Scipion/scipion-3.0.0/software/em
mkdir /public/EM/Scipion/scipion-3.0.0/software/em/ascp
cd /public/EM/Scipion/scipion-3.0.0/software/em
tar -xf ascp-3.7.4.tgz -C ascp
cd /public/EM/Scipion/scipion-3.0.0/software/em/ascp
./aspera-connect-3.7.4.147727-linux-64.sh

Installing Aspera Connect

Deploying Aspera Connect (/lmb/home/gsharov/.aspera/connect) for the current user only.
Restart firefox manually to load the Aspera Connect plug-in

Install complete.
Traceback (most recent call last):
  File "/net/nfs1/public/EM/Scipion/scipion-3.0.0/scipion-app/scipion/__main__.py", line 443, in <module>
    main()
  File "/net/nfs1/public/EM/Scipion/scipion-3.0.0/scipion-app/scipion/__main__.py", line 286, in main
    installPluginMethods()
  File "/net/nfs1/public/EM/Scipion/scipion-3.0.0/scipion-app/scipion/install/install_plugin.py", line 231, in installPluginMethods
    plugin.installBin({'args': ['-j', numberProcessor]})
  File "/net/nfs1/public/EM/Scipion/scipion-3.0.0/scipion-app/scipion/install/plugin_funcs.py", line 166, in installBin
    environment.execute()
  File "/net/nfs1/public/EM/Scipion/scipion-3.0.0/scipion-app/scipion/install/funcs.py", line 748, in execute
    self._executeTargets(targetList)
  File "/net/nfs1/public/EM/Scipion/scipion-3.0.0/scipion-app/scipion/install/funcs.py", line 690, in _executeTargets
    tgt.execute()
  File "/net/nfs1/public/EM/Scipion/scipion-3.0.0/scipion-app/scipion/install/funcs.py", line 220, in execute
    command.execute()
  File "/net/nfs1/public/EM/Scipion/scipion-3.0.0/scipion-app/scipion/install/funcs.py", line 160, in execute
    assert glob(t), ("target '%s' not built (after "
AssertionError: target '/public/EM/Scipion/scipion-3.0.0/software/em/ascp/~/.aspera/connect/bin/ascp' not built (after running './aspera-connect-3.7.4.147727-linux-64.sh')
Error at main: target '/public/EM/Scipion/scipion-3.0.0/software/em/ascp/~/.aspera/connect/bin/ascp' not built (after running './aspera-connect-3.7.4.147727-linux-64.sh')

Some issues in the plugin related to bibtex and reference

Wrong reference here: https://github.com/scipion-em/scipion-em-empiar/blob/devel/empiar/__init__.py#L41

Bibtex in the old way, not updated: https://github.com/scipion-em/scipion-em-empiar/blob/devel/empiar/bibtex.py

???

I dont understand what's the depositor protocol is doing.. I'm trying a simple test without actual deposition. I put input set only imported movies. I see in the logs:

Logging configured. STDOUT --> Runs/003808_EmpiarDepositor/logs/run.stdout , STDERR --> Runs/003808_EmpiarDepositor/logs/run.stderr
�[32mRUNNING PROTOCOL -----------------�[0m
Protocol starts
Hostname: hal.lmb.internal
PID: 2959955
pyworkflow: 3.0.16
plugin: empiar
plugin v: 3.0.6
currentDir: /cephfs/gsharov/ScipionUserData/projects/relion40_tutorial
workingDir: Runs/003808_EmpiarDepositor
runMode: Restart
          MPI: 1
      threads: 1
 Starting at step: 1
 Running steps 
�[35mSTARTED�[0m: createDepositionStep, step 1, time 2021-08-10 13:59:58.239760
output key is outputMovies
�[32m xmipp_transform_filter  -i Runs/000002_ProtImportMovies/extra/20170629_00021_frameImage.tiff -o Runs/003808_EmpiarDepositor/tmp/20170629_00021_frameImage.tiff --fourier low_pass 0.050000�[0m
Filter Band: Lowpass before 0.05
Filter Shape: Raised cosine with 0.02 raised frequencies
Input File: Runs/000002_ProtImportMovies/extra/20170629_00021_frameImage.tiff
Output File: Runs/003808_EmpiarDepositor/tmp/20170629_00021_frameImage.tiff
�[32m xmipp_transform_filter  -i Runs/000002_ProtImportMovies/extra/20170629_00022_frameImage.tiff -o Runs/003808_EmpiarDepositor/tmp/20170629_00022_frameImage.tiff --fourier low_pass 0.050000�[0m
Filter Band: Lowpass before 0.05
Filter Shape: Raised cosine with 0.02 raised frequencies
Input File: Runs/000002_ProtImportMovies/extra/20170629_00022_frameImage.tiff
Output File: Runs/003808_EmpiarDepositor/tmp/20170629_00022_frameImage.tiff
�[32m xmipp_transform_filter  -i Runs/000002_ProtImportMovies/extra/20170629_00023_frameImage.tiff -o Runs/003808_EmpiarDepositor/tmp/20170629_00023_frameImage.tiff --fourier low_pass 0.050000�[0m
Filter Band: Lowpass before 0.05
Filter Shape: Raised cosine with 0.02 raised frequencies
Input File: Runs/000002_ProtImportMovies/extra/20170629_00023_frameImage.tiff
Output File: Runs/003808_EmpiarDepositor/tmp/20170629_00023_frameImage.tiff
output key is outputMovies
�[32m xmipp_transform_filter  -i Runs/000002_ProtImportMovies/extra/20170629_00021_frameImage.tiff -o Runs/003808_EmpiarDepositor/tmp/20170629_00021_frameImage.tiff --fourier low_pass 0.050000�[0m
Filter Band: Lowpass before 0.05
Filter Shape: Raised cosine with 0.02 raised frequencies
Input File: Runs/000002_ProtImportMovies/extra/20170629_00021_frameImage.tiff
Output File: Runs/003808_EmpiarDepositor/tmp/20170629_00021_frameImage.tiff
�[32m xmipp_transform_filter  -i Runs/000002_ProtImportMovies/extra/20170629_00022_frameImage.tiff -o Runs/003808_EmpiarDepositor/tmp/20170629_00022_frameImage.tiff --fourier low_pass 0.050000�[0m
Filter Band: Lowpass before 0.05
Filter Shape: Raised cosine with 0.02 raised frequencies
Input File: Runs/000002_ProtImportMovies/extra/20170629_00022_frameImage.tiff
Output File: Runs/003808_EmpiarDepositor/tmp/20170629_00022_frameImage.tiff
�[32m xmipp_transform_filter  -i Runs/000002_ProtImportMovies/extra/20170629_00023_frameImage.tiff -o Runs/003808_EmpiarDepositor/tmp/20170629_00023_frameImage.tiff --fourier low_pass 0.050000�[0m
Filter Band: Lowpass before 0.05
Filter Shape: Raised cosine with 0.02 raised frequencies
Input File: Runs/000002_ProtImportMovies/extra/20170629_00023_frameImage.tiff
Output File: Runs/003808_EmpiarDepositor/tmp/20170629_00023_frameImage.tiff
output key is outputMicrographsDoseWeighted
�[32m xmipp_transform_filter  -i Runs/000087_ProtRelionMotioncor/extra/20170629_00021_frameImage_aligned_mic_DW.mrc -o Runs/003808_EmpiarDepositor/tmp/20170629_00021_frameImage_aligned_mic_DW.mrc --fourier low_pass 0.050000�[0m
Filter Band: Lowpass before 0.05
Filter Shape: Raised cosine with 0.02 raised frequencies
Input File: Runs/000087_ProtRelionMotioncor/extra/20170629_00021_frameImage_aligned_mic_DW.mrc
Output File: Runs/003808_EmpiarDepositor/tmp/20170629_00021_frameImage_aligned_mic_DW.mrc
�[32m xmipp_transform_filter  -i Runs/000087_ProtRelionMotioncor/extra/20170629_00022_frameImage_aligned_mic_DW.mrc -o Runs/003808_EmpiarDepositor/tmp/20170629_00022_frameImage_aligned_mic_DW.mrc --fourier low_pass 0.050000�[0m
Filter Band: Lowpass before 0.05
Filter Shape: Raised cosine with 0.02 raised frequencies
Input File: Runs/000087_ProtRelionMotioncor/extra/20170629_00022_frameImage_aligned_mic_DW.mrc
Output File: Runs/003808_EmpiarDepositor/tmp/20170629_00022_frameImage_aligned_mic_DW.mrc
�[32m xmipp_transform_filter  -i Runs/000087_ProtRelionMotioncor/extra/20170629_00023_frameImage_aligned_mic_DW.mrc -o Runs/003808_EmpiarDepositor/tmp/20170629_00023_frameImage_aligned_mic_DW.mrc --fourier low_pass 0.050000�[0m
Filter Band: Lowpass before 0.05
Filter Shape: Raised cosine with 0.02 raised frequencies
Input File: Runs/000087_ProtRelionMotioncor/extra/20170629_00023_frameImage_aligned_mic_DW.mrc
Output File: Runs/003808_EmpiarDepositor/tmp/20170629_00023_frameImage_aligned_mic_DW.mrc
output key is outputCTF
output key is outputCoordinates
�[32m xmipp_transform_filter  -i Runs/000087_ProtRelionMotioncor/extra/20170629_00021_frameImage_aligned_mic_DW.mrc -o Runs/003808_EmpiarDepositor/tmp/20170629_00021_frameImage_aligned_mic_DW.mrc --fourier low_pass 0.050000�[0m
Filter Band: Lowpass before 0.05
Filter Shape: Raised cosine with 0.02 raised frequencies
Input File: Runs/000087_ProtRelionMotioncor/extra/20170629_00021_frameImage_aligned_mic_DW.mrc
Output File: Runs/003808_EmpiarDepositor/tmp/20170629_00021_frameImage_aligned_mic_DW.mrc
�[32m xmipp_transform_filter  -i Runs/000087_ProtRelionMotioncor/extra/20170629_00022_frameImage_aligned_mic_DW.mrc -o Runs/003808_EmpiarDepositor/tmp/20170629_00022_frameImage_aligned_mic_DW.mrc --fourier low_pass 0.050000�[0m
Filter Band: Lowpass before 0.05
Filter Shape: Raised cosine with 0.02 raised frequencies
Input File: Runs/000087_ProtRelionMotioncor/extra/20170629_00022_frameImage_aligned_mic_DW.mrc
Output File: Runs/003808_EmpiarDepositor/tmp/20170629_00022_frameImage_aligned_mic_DW.mrc
�[32m xmipp_transform_filter  -i Runs/000087_ProtRelionMotioncor/extra/20170629_00023_frameImage_aligned_mic_DW.mrc -o Runs/003808_EmpiarDepositor/tmp/20170629_00023_frameImage_aligned_mic_DW.mrc --fourier low_pass 0.050000�[0m
Filter Band: Lowpass before 0.05
Filter Shape: Raised cosine with 0.02 raised frequencies
Input File: Runs/000087_ProtRelionMotioncor/extra/20170629_00023_frameImage_aligned_mic_DW.mrc
Output File: Runs/003808_EmpiarDepositor/tmp/20170629_00023_frameImage_aligned_mic_DW.mrc
output key is outputCoordinates
�[32m xmipp_transform_filter  -i Runs/000087_ProtRelionMotioncor/extra/20170629_00021_frameImage_aligned_mic_DW.mrc -o Runs/003808_EmpiarDepositor/tmp/20170629_00021_frameImage_aligned_mic_DW.mrc --fourier low_pass 0.050000�[0m
Filter Band: Lowpass before 0.05
Filter Shape: Raised cosine with 0.02 raised frequencies
Input File: Runs/000087_ProtRelionMotioncor/extra/20170629_00021_frameImage_aligned_mic_DW.mrc
Output File: Runs/003808_EmpiarDepositor/tmp/20170629_00021_frameImage_aligned_mic_DW.mrc
�[32m xmipp_transform_filter  -i Runs/000087_ProtRelionMotioncor/extra/20170629_00022_frameImage_aligned_mic_DW.mrc -o Runs/003808_EmpiarDepositor/tmp/20170629_00022_frameImage_aligned_mic_DW.mrc --fourier low_pass 0.050000�[0m
Filter Band: Lowpass before 0.05
Filter Shape: Raised cosine with 0.02 raised frequencies
Input File: Runs/000087_ProtRelionMotioncor/extra/20170629_00022_frameImage_aligned_mic_DW.mrc
Output File: Runs/003808_EmpiarDepositor/tmp/20170629_00022_frameImage_aligned_mic_DW.mrc
�[32m xmipp_transform_filter  -i Runs/000087_ProtRelionMotioncor/extra/20170629_00023_frameImage_aligned_mic_DW.mrc -o Runs/003808_EmpiarDepositor/tmp/20170629_00023_frameImage_aligned_mic_DW.mrc --fourier low_pass 0.050000�[0m
Filter Band: Lowpass before 0.05
Filter Shape: Raised cosine with 0.02 raised frequencies
Input File: Runs/000087_ProtRelionMotioncor/extra/20170629_00023_frameImage_aligned_mic_DW.mrc
Output File: Runs/003808_EmpiarDepositor/tmp/20170629_00023_frameImage_aligned_mic_DW.mrc
output key is boxsize
output key is outputParticles
�[32m xmipp_transform_filter  -i Runs/000657_ProtRelionExtractParticles/extra/mic_000001.mrcs -o Runs/003808_EmpiarDepositor/tmp/mic_000001.mrcs --fourier low_pass 0.050000�[0m
Filter Band: Lowpass before 0.05
Filter Shape: Raised cosine with 0.02 raised frequencies
Input File: Runs/000657_ProtRelionExtractParticles/extra/mic_000001.mrcs
Output File: Runs/003808_EmpiarDepositor/tmp/mic_000001.mrcs
�[32m xmipp_transform_filter  -i Runs/000657_ProtRelionExtractParticles/extra/mic_000001.mrcs -o Runs/003808_EmpiarDepositor/tmp/mic_000001.mrcs --fourier low_pass 0.050000�[0m
Filter Band: Lowpass before 0.05
Filter Shape: Raised cosine with 0.02 raised frequencies
Input File: Runs/000657_ProtRelionExtractParticles/extra/mic_000001.mrcs
Output File: Runs/003808_EmpiarDepositor/tmp/mic_000001.mrcs
�[32m xmipp_transform_filter  -i Runs/000657_ProtRelionExtractParticles/extra/mic_000001.mrcs -o Runs/003808_EmpiarDepositor/tmp/mic_000001.mrcs --fourier low_pass 0.050000�[0m
Filter Band: Lowpass before 0.05
Filter Shape: Raised cosine with 0.02 raised frequencies
Input File: Runs/000657_ProtRelionExtractParticles/extra/mic_000001.mrcs
Output File: Runs/003808_EmpiarDepositor/tmp/mic_000001.mrcs
�[32m xmipp_transform_filter  -i Runs/000657_ProtRelionExtractParticles/extra/mic_000001.mrcs -o Runs/003808_EmpiarDepositor/tmp/mic_000001.mrcs --fourier low_pass 0.050000�[0m
Filter Band: Lowpass before 0.05
Filter Shape: Raised cosine with 0.02 raised frequencies
Input File: Runs/000657_ProtRelionExtractParticles/extra/mic_000001.mrcs
Output File: Runs/003808_EmpiarDepositor/tmp/mic_000001.mrcs
�[32m xmipp_transform_filter  -i Runs/000657_ProtRelionExtractParticles/extra/mic_000001.mrcs -o Runs/003808_EmpiarDepositor/tmp/mic_000001.mrcs --fourier low_pass 0.050000�[0m
Filter Band: Lowpass before 0.05
Filter Shape: Raised cosine with 0.02 raised frequencies
Input File: Runs/000657_ProtRelionExtractParticles/extra/mic_000001.mrcs
Output File: Runs/003808_EmpiarDepositor/tmp/mic_000001.mrcs
�[32m xmipp_transform_filter  -i Runs/000657_ProtRelionExtractParticles/extra/mic_000001.mrcs -o Runs/003808_EmpiarDepositor/tmp/mic_000001.mrcs --fourier low_pass 0.050000�[0m
Filter Band: Lowpass before 0.05
Filter Shape: Raised cosine with 0.02 raised frequencies
Input File: Runs/000657_ProtRelionExtractParticles/extra/mic_000001.mrcs
Output File: Runs/003808_EmpiarDepositor/tmp/mic_000001.mrcs
�[32m xmipp_transform_filter  -i Runs/000657_ProtRelionExtractParticles/extra/mic_000001.mrcs -o Runs/003808_EmpiarDepositor/tmp/mic_000001.mrcs --fourier low_pass 0.050000�[0m
Filter Band: Lowpass before 0.05
Filter Shape: Raised cosine with 0.02 raised frequencies
Input File: Runs/000657_ProtRelionExtractParticles/extra/mic_000001.mrcs
Output File: Runs/003808_EmpiarDepositor/tmp/mic_000001.mrcs
�[32m xmipp_transform_filter  -i Runs/000657_ProtRelionExtractParticles/extra/mic_000001.mrcs -o Runs/003808_EmpiarDepositor/tmp/mic_000001.mrcs --fourier low_pass 0.050000�[0m
Filter Band: Lowpass before 0.05
Filter Shape: Raised cosine with 0.02 raised frequencies
Input File: Runs/000657_ProtRelionExtractParticles/extra/mic_000001.mrcs
Output File: Runs/003808_EmpiarDepositor/tmp/mic_000001.mrcs
�[32m xmipp_transform_filter  -i Runs/000657_ProtRelionExtractParticles/extra/mic_000001.mrcs -o Runs/003808_EmpiarDepositor/tmp/mic_000001.mrcs --fourier low_pass 0.050000�[0m
Filter Band: Lowpass before 0.05
Filter Shape: Raised cosine with 0.02 raised frequencies
Input File: Runs/000657_ProtRelionExtractParticles/extra/mic_000001.mrcs
Output File: Runs/003808_EmpiarDepositor/tmp/mic_000001.mrcs
�[32m xmipp_transform_filter  -i Runs/000657_ProtRelionExtractParticles/extra/mic_000001.mrcs -o Runs/003808_EmpiarDepositor/tmp/mic_000001.mrcs --fourier low_pass 0.050000�[0m
Filter Band: Lowpass before 0.05
Filter Shape: Raised cosine with 0.02 raised frequencies
Input File: Runs/000657_ProtRelionExtractParticles/extra/mic_000001.mrcs
Output File: Runs/003808_EmpiarDepositor/tmp/mic_000001.mrcs
�[32m xmipp_transform_filter  -i Runs/000657_ProtRelionExtractParticles/extra/mic_000001.mrcs -o Runs/003808_EmpiarDepositor/tmp/mic_000001.mrcs --fourier low_pass 0.050000�[0m
Filter Band: Lowpass before 0.05
Filter Shape: Raised cosine with 0.02 raised frequencies
Input File: Runs/000657_ProtRelionExtractParticles/extra/mic_000001.mrcs
Output File: Runs/003808_EmpiarDepositor/tmp/mic_000001.mrcs
�[32m xmipp_transform_filter  -i Runs/000657_ProtRelionExtractParticles/extra/mic_000001.mrcs -o Runs/003808_EmpiarDepositor/tmp/mic_000001.mrcs --fourier low_pass 0.050000�[0m
Filter Band: Lowpass before 0.05
Filter Shape: Raised cosine with 0.02 raised frequencies
Input File: Runs/000657_ProtRelionExtractParticles/extra/mic_000001.mrcs
Output File: Runs/003808_EmpiarDepositor/tmp/mic_000001.mrcs
�[32m xmipp_transform_filter  -i Runs/000657_ProtRelionExtractParticles/extra/mic_000001.mrcs -o Runs/003808_EmpiarDepositor/tmp/mic_000001.mrcs --fourier low_pass 0.050000�[0m
Filter Band: Lowpass before 0.05
Filter Shape: Raised cosine with 0.02 raised frequencies
Input File: Runs/000657_ProtRelionExtractParticles/extra/mic_000001.mrcs
Output File: Runs/003808_EmpiarDepositor/tmp/mic_000001.mrcs
�[32m xmipp_transform_filter  -i Runs/000657_ProtRelionExtractParticles/extra/mic_000001.mrcs -o Runs/003808_EmpiarDepositor/tmp/mic_000001.mrcs --fourier low_pass 0.050000�[0m
Filter Band: Lowpass before 0.05
Filter Shape: Raised cosine with 0.02 raised frequencies
Input File: Runs/000657_ProtRelionExtractParticles/extra/mic_000001.mrcs
Output File: Runs/003808_EmpiarDepositor/tmp/mic_000001.mrcs
�[32m xmipp_transform_filter  -i Runs/000657_ProtRelionExtractParticles/extra/mic_000001.mrcs -o Runs/003808_EmpiarDepositor/tmp/mic_000001.mrcs --fourier low_pass 0.050000�[0m
Filter Band: Lowpass before 0.05
Filter Shape: Raised cosine with 0.02 raised frequencies
Input File: Runs/000657_ProtRelionExtractParticles/extra/mic_000001.mrcs
Output File: Runs/003808_EmpiarDepositor/tmp/mic_000001.mrcs
output key is outputClasses
output key is outputParticles
�[32m xmipp_transform_filter  -i Runs/000657_ProtRelionExtractParticles/extra/mic_000001.mrcs -o Runs/003808_EmpiarDepositor/tmp/mic_000001.mrcs --fourier low_pass 0.050000�[0m
Filter Band: Lowpass before 0.05
Filter Shape: Raised cosine with 0.02 raised frequencies
Input File: Runs/000657_ProtRelionExtractParticles/extra/mic_000001.mrcs
Output File: Runs/003808_EmpiarDepositor/tmp/mic_000001.mrcs
�[32m xmipp_transform_filter  -i Runs/000657_ProtRelionExtractParticles/extra/mic_000001.mrcs -o Runs/003808_EmpiarDepositor/tmp/mic_000001.mrcs --fourier low_pass 0.050000�[0m
Filter Band: Lowpass before 0.05
Filter Shape: Raised cosine with 0.02 raised frequencies
Input File: Runs/000657_ProtRelionExtractParticles/extra/mic_000001.mrcs
Output File: Runs/003808_EmpiarDepositor/tmp/mic_000001.mrcs
�[32m xmipp_transform_filter  -i Runs/000657_ProtRelionExtractParticles/extra/mic_000001.mrcs -o Runs/003808_EmpiarDepositor/tmp/mic_000001.mrcs --fourier low_pass 0.050000�[0m
Filter Band: Lowpass before 0.05
Filter Shape: Raised cosine with 0.02 raised frequencies
Input File: Runs/000657_ProtRelionExtractParticles/extra/mic_000001.mrcs
Output File: Runs/003808_EmpiarDepositor/tmp/mic_000001.mrcs
�[32m xmipp_transform_filter  -i Runs/000657_ProtRelionExtractParticles/extra/mic_000001.mrcs -o Runs/003808_EmpiarDepositor/tmp/mic_000001.mrcs --fourier low_pass 0.050000�[0m
Filter Band: Lowpass before 0.05
Filter Shape: Raised cosine with 0.02 raised frequencies
Input File: Runs/000657_ProtRelionExtractParticles/extra/mic_000001.mrcs
Output File: Runs/003808_EmpiarDepositor/tmp/mic_000001.mrcs
�[32m xmipp_transform_filter  -i Runs/000657_ProtRelionExtractParticles/extra/mic_000001.mrcs -o Runs/003808_EmpiarDepositor/tmp/mic_000001.mrcs --fourier low_pass 0.050000�[0m
Filter Band: Lowpass before 0.05
Filter Shape: Raised cosine with 0.02 raised frequencies
Input File: Runs/000657_ProtRelionExtractParticles/extra/mic_000001.mrcs
Output File: Runs/003808_EmpiarDepositor/tmp/mic_000001.mrcs
�[32m xmipp_transform_filter  -i Runs/000657_ProtRelionExtractParticles/extra/mic_000001.mrcs -o Runs/003808_EmpiarDepositor/tmp/mic_000001.mrcs --fourier low_pass 0.050000�[0m
Filter Band: Lowpass before 0.05
Filter Shape: Raised cosine with 0.02 raised frequencies
Input File: Runs/000657_ProtRelionExtractParticles/extra/mic_000001.mrcs
Output File: Runs/003808_EmpiarDepositor/tmp/mic_000001.mrcs
�[32m xmipp_transform_filter  -i Runs/000657_ProtRelionExtractParticles/extra/mic_000001.mrcs -o Runs/003808_EmpiarDepositor/tmp/mic_000001.mrcs --fourier low_pass 0.050000�[0m
Filter Band: Lowpass before 0.05
Filter Shape: Raised cosine with 0.02 raised frequencies
Input File: Runs/000657_ProtRelionExtractParticles/extra/mic_000001.mrcs
Output File: Runs/003808_EmpiarDepositor/tmp/mic_000001.mrcs
�[32m xmipp_transform_filter  -i Runs/000657_ProtRelionExtractParticles/extra/mic_000001.mrcs -o Runs/003808_EmpiarDepositor/tmp/mic_000001.mrcs --fourier low_pass 0.050000�[0m
Filter Band: Lowpass before 0.05
Filter Shape: Raised cosine with 0.02 raised frequencies
Input File: Runs/000657_ProtRelionExtractParticles/extra/mic_000001.mrcs
Output File: Runs/003808_EmpiarDepositor/tmp/mic_000001.mrcs
�[32m xmipp_transform_filter  -i Runs/000657_ProtRelionExtractParticles/extra/mic_000001.mrcs -o Runs/003808_EmpiarDepositor/tmp/mic_000001.mrcs --fourier low_pass 0.050000�[0m
Filter Band: Lowpass before 0.05
Filter Shape: Raised cosine with 0.02 raised frequencies
Input File: Runs/000657_ProtRelionExtractParticles/extra/mic_000001.mrcs
Output File: Runs/003808_EmpiarDepositor/tmp/mic_000001.mrcs
�[32m xmipp_transform_filter  -i Runs/000657_ProtRelionExtractParticles/extra/mic_000001.mrcs -o Runs/003808_EmpiarDepositor/tmp/mic_000001.mrcs --fourier low_pass 0.050000�[0m
Filter Band: Lowpass before 0.05
Filter Shape: Raised cosine with 0.02 raised frequencies
Input File: Runs/000657_ProtRelionExtractParticles/extra/mic_000001.mrcs
Output File: Runs/003808_EmpiarDepositor/tmp/mic_000001.mrcs
�[32m xmipp_transform_filter  -i Runs/000657_ProtRelionExtractParticles/extra/mic_000001.mrcs -o Runs/003808_EmpiarDepositor/tmp/mic_000001.mrcs --fourier low_pass 0.050000�[0m
Filter Band: Lowpass before 0.05
Filter Shape: Raised cosine with 0.02 raised frequencies
Input File: Runs/000657_ProtRelionExtractParticles/extra/mic_000001.mrcs
Output File: Runs/003808_EmpiarDepositor/tmp/mic_000001.mrcs
�[32m xmipp_transform_filter  -i Runs/000657_ProtRelionExtractParticles/extra/mic_000001.mrcs -o Runs/003808_EmpiarDepositor/tmp/mic_000001.mrcs --fourier low_pass 0.050000�[0m
Filter Band: Lowpass before 0.05
Filter Shape: Raised cosine with 0.02 raised frequencies
Input File: Runs/000657_ProtRelionExtractParticles/extra/mic_000001.mrcs
Output File: Runs/003808_EmpiarDepositor/tmp/mic_000001.mrcs
�[32m xmipp_transform_filter  -i Runs/000657_ProtRelionExtractParticles/extra/mic_000001.mrcs -o Runs/003808_EmpiarDepositor/tmp/mic_000001.mrcs --fourier low_pass 0.050000�[0m
Filter Band: Lowpass before 0.05
Filter Shape: Raised cosine with 0.02 raised frequencies
Input File: Runs/000657_ProtRelionExtractParticles/extra/mic_000001.mrcs
Output File: Runs/003808_EmpiarDepositor/tmp/mic_000001.mrcs
�[32m xmipp_transform_filter  -i Runs/000657_ProtRelionExtractParticles/extra/mic_000001.mrcs -o Runs/003808_EmpiarDepositor/tmp/mic_000001.mrcs --fourier low_pass 0.050000�[0m
Filter Band: Lowpass before 0.05
Filter Shape: Raised cosine with 0.02 raised frequencies
Input File: Runs/000657_ProtRelionExtractParticles/extra/mic_000001.mrcs
Output File: Runs/003808_EmpiarDepositor/tmp/mic_000001.mrcs
�[32m xmipp_transform_filter  -i Runs/000657_ProtRelionExtractParticles/extra/mic_000001.mrcs -o Runs/003808_EmpiarDepositor/tmp/mic_000001.mrcs --fourier low_pass 0.050000�[0m
Filter Band: Lowpass before 0.05
Filter Shape: Raised cosine with 0.02 raised frequencies
Input File: Runs/000657_ProtRelionExtractParticles/extra/mic_000001.mrcs
Output File: Runs/003808_EmpiarDepositor/tmp/mic_000001.mrcs
output key is outputVolume
output key is outputParticles
�[32m xmipp_transform_filter  -i Runs/000657_ProtRelionExtractParticles/extra/mic_000001.mrcs -o Runs/003808_EmpiarDepositor/tmp/mic_000001.mrcs --fourier low_pass 0.050000�[0m
Filter Band: Lowpass before 0.05
Filter Shape: Raised cosine with 0.02 raised frequencies
Input File: Runs/000657_ProtRelionExtractParticles/extra/mic_000001.mrcs
Output File: Runs/003808_EmpiarDepositor/tmp/mic_000001.mrcs
�[32m xmipp_transform_filter  -i Runs/000657_ProtRelionExtractParticles/extra/mic_000001.mrcs -o Runs/003808_EmpiarDepositor/tmp/mic_000001.mrcs --fourier low_pass 0.050000�[0m
Filter Band: Lowpass before 0.05
Filter Shape: Raised cosine with 0.02 raised frequencies
Input File: Runs/000657_ProtRelionExtractParticles/extra/mic_000001.mrcs
Output File: Runs/003808_EmpiarDepositor/tmp/mic_000001.mrcs
�[32m xmipp_transform_filter  -i Runs/000657_ProtRelionExtractParticles/extra/mic_000001.mrcs -o Runs/003808_EmpiarDepositor/tmp/mic_000001.mrcs --fourier low_pass 0.050000�[0m
Filter Band: Lowpass before 0.05
Filter Shape: Raised cosine with 0.02 raised frequencies
Input File: Runs/000657_ProtRelionExtractParticles/extra/mic_000001.mrcs
Output File: Runs/003808_EmpiarDepositor/tmp/mic_000001.mrcs
�[32m xmipp_transform_filter  -i Runs/000657_ProtRelionExtractParticles/extra/mic_000001.mrcs -o Runs/003808_EmpiarDepositor/tmp/mic_000001.mrcs --fourier low_pass 0.050000�[0m
Filter Band: Lowpass before 0.05
Filter Shape: Raised cosine with 0.02 raised frequencies
Input File: Runs/000657_ProtRelionExtractParticles/extra/mic_000001.mrcs
Output File: Runs/003808_EmpiarDepositor/tmp/mic_000001.mrcs
�[32m xmipp_transform_filter  -i Runs/000657_ProtRelionExtractParticles/extra/mic_000001.mrcs -o Runs/003808_EmpiarDepositor/tmp/mic_000001.mrcs --fourier low_pass 0.050000�[0m
Filter Band: Lowpass before 0.05
Filter Shape: Raised cosine with 0.02 raised frequencies
Input File: Runs/000657_ProtRelionExtractParticles/extra/mic_000001.mrcs
Output File: Runs/003808_EmpiarDepositor/tmp/mic_000001.mrcs
�[32m xmipp_transform_filter  -i Runs/000657_ProtRelionExtractParticles/extra/mic_000001.mrcs -o Runs/003808_EmpiarDepositor/tmp/mic_000001.mrcs --fourier low_pass 0.050000�[0m
Filter Band: Lowpass before 0.05
Filter Shape: Raised cosine with 0.02 raised frequencies
Input File: Runs/000657_ProtRelionExtractParticles/extra/mic_000001.mrcs
Output File: Runs/003808_EmpiarDepositor/tmp/mic_000001.mrcs
�[32m xmipp_transform_filter  -i Runs/000657_ProtRelionExtractParticles/extra/mic_000001.mrcs -o Runs/003808_EmpiarDepositor/tmp/mic_000001.mrcs --fourier low_pass 0.050000�[0m
Filter Band: Lowpass before 0.05
Filter Shape: Raised cosine with 0.02 raised frequencies
Input File: Runs/000657_ProtRelionExtractParticles/extra/mic_000001.mrcs
Output File: Runs/003808_EmpiarDepositor/tmp/mic_000001.mrcs
�[32m xmipp_transform_filter  -i Runs/000657_ProtRelionExtractParticles/extra/mic_000001.mrcs -o Runs/003808_EmpiarDepositor/tmp/mic_000001.mrcs --fourier low_pass 0.050000�[0m
Filter Band: Lowpass before 0.05
Filter Shape: Raised cosine with 0.02 raised frequencies
Input File: Runs/000657_ProtRelionExtractParticles/extra/mic_000001.mrcs
Output File: Runs/003808_EmpiarDepositor/tmp/mic_000001.mrcs
�[32m xmipp_transform_filter  -i Runs/000657_ProtRelionExtractParticles/extra/mic_000001.mrcs -o Runs/003808_EmpiarDepositor/tmp/mic_000001.mrcs --fourier low_pass 0.050000�[0m
Filter Band: Lowpass before 0.05
Filter Shape: Raised cosine with 0.02 raised frequencies
Input File: Runs/000657_ProtRelionExtractParticles/extra/mic_000001.mrcs
Output File: Runs/003808_EmpiarDepositor/tmp/mic_000001.mrcs
�[32m xmipp_transform_filter  -i Runs/000657_ProtRelionExtractParticles/extra/mic_000001.mrcs -o Runs/003808_EmpiarDepositor/tmp/mic_000001.mrcs --fourier low_pass 0.050000�[0m
Filter Band: Lowpass before 0.05
Filter Shape: Raised cosine with 0.02 raised frequencies
Input File: Runs/000657_ProtRelionExtractParticles/extra/mic_000001.mrcs
Output File: Runs/003808_EmpiarDepositor/tmp/mic_000001.mrcs
�[32m xmipp_transform_filter  -i Runs/000657_ProtRelionExtractParticles/extra/mic_000001.mrcs -o Runs/003808_EmpiarDepositor/tmp/mic_000001.mrcs --fourier low_pass 0.050000�[0m
Filter Band: Lowpass before 0.05
Filter Shape: Raised cosine with 0.02 raised frequencies
Input File: Runs/000657_ProtRelionExtractParticles/extra/mic_000001.mrcs
Output File: Runs/003808_EmpiarDepositor/tmp/mic_000001.mrcs
�[32m xmipp_transform_filter  -i Runs/000657_ProtRelionExtractParticles/extra/mic_000001.mrcs -o Runs/003808_EmpiarDepositor/tmp/mic_000001.mrcs --fourier low_pass 0.050000�[0m
Filter Band: Lowpass before 0.05
Filter Shape: Raised cosine with 0.02 raised frequencies
Input File: Runs/000657_ProtRelionExtractParticles/extra/mic_000001.mrcs
Output File: Runs/003808_EmpiarDepositor/tmp/mic_000001.mrcs
�[32m xmipp_transform_filter  -i Runs/000657_ProtRelionExtractParticles/extra/mic_000001.mrcs -o Runs/003808_EmpiarDepositor/tmp/mic_000001.mrcs --fourier low_pass 0.050000�[0m
Filter Band: Lowpass before 0.05
Filter Shape: Raised cosine with 0.02 raised frequencies
Input File: Runs/000657_ProtRelionExtractParticles/extra/mic_000001.mrcs
Output File: Runs/003808_EmpiarDepositor/tmp/mic_000001.mrcs
�[32m xmipp_transform_filter  -i Runs/000657_ProtRelionExtractParticles/extra/mic_000001.mrcs -o Runs/003808_EmpiarDepositor/tmp/mic_000001.mrcs --fourier low_pass 0.050000�[0m
Filter Band: Lowpass before 0.05
Filter Shape: Raised cosine with 0.02 raised frequencies
Input File: Runs/000657_ProtRelionExtractParticles/extra/mic_000001.mrcs
Output File: Runs/003808_EmpiarDepositor/tmp/mic_000001.mrcs
�[32m xmipp_transform_filter  -i Runs/000657_ProtRelionExtractParticles/extra/mic_000001.mrcs -o Runs/003808_EmpiarDepositor/tmp/mic_000001.mrcs --fourier low_pass 0.050000�[0m
Filter Band: Lowpass before 0.05
Filter Shape: Raised cosine with 0.02 raised frequencies
Input File: Runs/000657_ProtRelionExtractParticles/extra/mic_000001.mrcs
Output File: Runs/003808_EmpiarDepositor/tmp/mic_000001.mrcs
output key is outputVolumeAligned
output key is outputVolumeSymmetrized
output key is outputClasses
output key is outputVolumes
output key is outputParticles
�[32m xmipp_transform_filter  -i Runs/000657_ProtRelionExtractParticles/extra/mic_000001.mrcs -o Runs/003808_EmpiarDepositor/tmp/mic_000001.mrcs --fourier low_pass 0.050000�[0m
Filter Band: Lowpass before 0.05
Filter Shape: Raised cosine with 0.02 raised frequencies
Input File: Runs/000657_ProtRelionExtractParticles/extra/mic_000001.mrcs
Output File: Runs/003808_EmpiarDepositor/tmp/mic_000001.mrcs
�[32m xmipp_transform_filter  -i Runs/000657_ProtRelionExtractParticles/extra/mic_000001.mrcs -o Runs/003808_EmpiarDepositor/tmp/mic_000001.mrcs --fourier low_pass 0.050000�[0m
Filter Band: Lowpass before 0.05
Filter Shape: Raised cosine with 0.02 raised frequencies
Input File: Runs/000657_ProtRelionExtractParticles/extra/mic_000001.mrcs
Output File: Runs/003808_EmpiarDepositor/tmp/mic_000001.mrcs
�[32m xmipp_transform_filter  -i Runs/000657_ProtRelionExtractParticles/extra/mic_000001.mrcs -o Runs/003808_EmpiarDepositor/tmp/mic_000001.mrcs --fourier low_pass 0.050000�[0m
Filter Band: Lowpass before 0.05
Filter Shape: Raised cosine with 0.02 raised frequencies
Input File: Runs/000657_ProtRelionExtractParticles/extra/mic_000001.mrcs
Output File: Runs/003808_EmpiarDepositor/tmp/mic_000001.mrcs
�[32m xmipp_transform_filter  -i Runs/000657_ProtRelionExtractParticles/extra/mic_000001.mrcs -o Runs/003808_EmpiarDepositor/tmp/mic_000001.mrcs --fourier low_pass 0.050000�[0m
Filter Band: Lowpass before 0.05
Filter Shape: Raised cosine with 0.02 raised frequencies
Input File: Runs/000657_ProtRelionExtractParticles/extra/mic_000001.mrcs
Output File: Runs/003808_EmpiarDepositor/tmp/mic_000001.mrcs
�[32m xmipp_transform_filter  -i Runs/000657_ProtRelionExtractParticles/extra/mic_000001.mrcs -o Runs/003808_EmpiarDepositor/tmp/mic_000001.mrcs --fourier low_pass 0.050000�[0m
Filter Band: Lowpass before 0.05
Filter Shape: Raised cosine with 0.02 raised frequencies
Input File: Runs/000657_ProtRelionExtractParticles/extra/mic_000001.mrcs
Output File: Runs/003808_EmpiarDepositor/tmp/mic_000001.mrcs
�[32m xmipp_transform_filter  -i Runs/000657_ProtRelionExtractParticles/extra/mic_000001.mrcs -o Runs/003808_EmpiarDepositor/tmp/mic_000001.mrcs --fourier low_pass 0.050000�[0m
Filter Band: Lowpass before 0.05
Filter Shape: Raised cosine with 0.02 raised frequencies
Input File: Runs/000657_ProtRelionExtractParticles/extra/mic_000001.mrcs
Output File: Runs/003808_EmpiarDepositor/tmp/mic_000001.mrcs
�[32m xmipp_transform_filter  -i Runs/000657_ProtRelionExtractParticles/extra/mic_000001.mrcs -o Runs/003808_EmpiarDepositor/tmp/mic_000001.mrcs --fourier low_pass 0.050000�[0m
Filter Band: Lowpass before 0.05
Filter Shape: Raised cosine with 0.02 raised frequencies
Input File: Runs/000657_ProtRelionExtractParticles/extra/mic_000001.mrcs
Output File: Runs/003808_EmpiarDepositor/tmp/mic_000001.mrcs
�[32m xmipp_transform_filter  -i Runs/000657_ProtRelionExtractParticles/extra/mic_000001.mrcs -o Runs/003808_EmpiarDepositor/tmp/mic_000001.mrcs --fourier low_pass 0.050000�[0m
Filter Band: Lowpass before 0.05
Filter Shape: Raised cosine with 0.02 raised frequencies
Input File: Runs/000657_ProtRelionExtractParticles/extra/mic_000001.mrcs
Output File: Runs/003808_EmpiarDepositor/tmp/mic_000001.mrcs
�[32m xmipp_transform_filter  -i Runs/000657_ProtRelionExtractParticles/extra/mic_000001.mrcs -o Runs/003808_EmpiarDepositor/tmp/mic_000001.mrcs --fourier low_pass 0.050000�[0m
Filter Band: Lowpass before 0.05
Filter Shape: Raised cosine with 0.02 raised frequencies
Input File: Runs/000657_ProtRelionExtractParticles/extra/mic_000001.mrcs
Output File: Runs/003808_EmpiarDepositor/tmp/mic_000001.mrcs
�[32m xmipp_transform_filter  -i Runs/000657_ProtRelionExtractParticles/extra/mic_000001.mrcs -o Runs/003808_EmpiarDepositor/tmp/mic_000001.mrcs --fourier low_pass 0.050000�[0m
Filter Band: Lowpass before 0.05
Filter Shape: Raised cosine with 0.02 raised frequencies
Input File: Runs/000657_ProtRelionExtractParticles/extra/mic_000001.mrcs
Output File: Runs/003808_EmpiarDepositor/tmp/mic_000001.mrcs
�[32m xmipp_transform_filter  -i Runs/000657_ProtRelionExtractParticles/extra/mic_000001.mrcs -o Runs/003808_EmpiarDepositor/tmp/mic_000001.mrcs --fourier low_pass 0.050000�[0m
Filter Band: Lowpass before 0.05
Filter Shape: Raised cosine with 0.02 raised frequencies
Input File: Runs/000657_ProtRelionExtractParticles/extra/mic_000001.mrcs
Output File: Runs/003808_EmpiarDepositor/tmp/mic_000001.mrcs
�[32m xmipp_transform_filter  -i Runs/000657_ProtRelionExtractParticles/extra/mic_000001.mrcs -o Runs/003808_EmpiarDepositor/tmp/mic_000001.mrcs --fourier low_pass 0.050000�[0m
Filter Band: Lowpass before 0.05
Filter Shape: Raised cosine with 0.02 raised frequencies
Input File: Runs/000657_ProtRelionExtractParticles/extra/mic_000001.mrcs
Output File: Runs/003808_EmpiarDepositor/tmp/mic_000001.mrcs
�[32m xmipp_transform_filter  -i Runs/000657_ProtRelionExtractParticles/extra/mic_000001.mrcs -o Runs/003808_EmpiarDepositor/tmp/mic_000001.mrcs --fourier low_pass 0.050000�[0m
Filter Band: Lowpass before 0.05
Filter Shape: Raised cosine with 0.02 raised frequencies
Input File: Runs/000657_ProtRelionExtractParticles/extra/mic_000001.mrcs
Output File: Runs/003808_EmpiarDepositor/tmp/mic_000001.mrcs
�[32m xmipp_transform_filter  -i Runs/000657_ProtRelionExtractParticles/extra/mic_000001.mrcs -o Runs/003808_EmpiarDepositor/tmp/mic_000001.mrcs --fourier low_pass 0.050000�[0m
Filter Band: Lowpass before 0.05
Filter Shape: Raised cosine with 0.02 raised frequencies
Input File: Runs/000657_ProtRelionExtractParticles/extra/mic_000001.mrcs
Output File: Runs/003808_EmpiarDepositor/tmp/mic_000001.mrcs
�[32m xmipp_transform_filter  -i Runs/000657_ProtRelionExtractParticles/extra/mic_000001.mrcs -o Runs/003808_EmpiarDepositor/tmp/mic_000001.mrcs --fourier low_pass 0.050000�[0m
Filter Band: Lowpass before 0.05
Filter Shape: Raised cosine with 0.02 raised frequencies
Input File: Runs/000657_ProtRelionExtractParticles/extra/mic_000001.mrcs
Output File: Runs/003808_EmpiarDepositor/tmp/mic_000001.mrcs
output key is outputRepresentatives
output key is outputCoordinates
�[32m xmipp_transform_filter  -i Runs/000087_ProtRelionMotioncor/extra/20170629_00021_frameImage_aligned_mic_DW.mrc -o Runs/003808_EmpiarDepositor/tmp/20170629_00021_frameImage_aligned_mic_DW.mrc --fourier low_pass 0.050000�[0m
Filter Band: Lowpass before 0.05
Filter Shape: Raised cosine with 0.02 raised frequencies
Input File: Runs/000087_ProtRelionMotioncor/extra/20170629_00021_frameImage_aligned_mic_DW.mrc
Output File: Runs/003808_EmpiarDepositor/tmp/20170629_00021_frameImage_aligned_mic_DW.mrc
�[32m xmipp_transform_filter  -i Runs/000087_ProtRelionMotioncor/extra/20170629_00022_frameImage_aligned_mic_DW.mrc -o Runs/003808_EmpiarDepositor/tmp/20170629_00022_frameImage_aligned_mic_DW.mrc --fourier low_pass 0.050000�[0m
Filter Band: Lowpass before 0.05
Filter Shape: Raised cosine with 0.02 raised frequencies
Input File: Runs/000087_ProtRelionMotioncor/extra/20170629_00022_frameImage_aligned_mic_DW.mrc
Output File: Runs/003808_EmpiarDepositor/tmp/20170629_00022_frameImage_aligned_mic_DW.mrc
�[32m xmipp_transform_filter  -i Runs/000087_ProtRelionMotioncor/extra/20170629_00023_frameImage_aligned_mic_DW.mrc -o Runs/003808_EmpiarDepositor/tmp/20170629_00023_frameImage_aligned_mic_DW.mrc --fourier low_pass 0.050000�[0m
Filter Band: Lowpass before 0.05
Filter Shape: Raised cosine with 0.02 raised frequencies
Input File: Runs/000087_ProtRelionMotioncor/extra/20170629_00023_frameImage_aligned_mic_DW.mrc
Output File: Runs/003808_EmpiarDepositor/tmp/20170629_00023_frameImage_aligned_mic_DW.mrc
output key is outputParticles
�[32m xmipp_transform_filter  -i Runs/001215_ProtRelionExtractParticles/extra/mic_000001.mrcs -o Runs/003808_EmpiarDepositor/tmp/mic_000001.mrcs --fourier low_pass 0.050000�[0m
Filter Band: Lowpass before 0.05
Filter Shape: Raised cosine with 0.02 raised frequencies
Input File: Runs/001215_ProtRelionExtractParticles/extra/mic_000001.mrcs
Output File: Runs/003808_EmpiarDepositor/tmp/mic_000001.mrcs
�[32m xmipp_transform_filter  -i Runs/001215_ProtRelionExtractParticles/extra/mic_000001.mrcs -o Runs/003808_EmpiarDepositor/tmp/mic_000001.mrcs --fourier low_pass 0.050000�[0m
Filter Band: Lowpass before 0.05
Filter Shape: Raised cosine with 0.02 raised frequencies
Input File: Runs/001215_ProtRelionExtractParticles/extra/mic_000001.mrcs
Output File: Runs/003808_EmpiarDepositor/tmp/mic_000001.mrcs
�[32m xmipp_transform_filter  -i Runs/001215_ProtRelionExtractParticles/extra/mic_000001.mrcs -o Runs/003808_EmpiarDepositor/tmp/mic_000001.mrcs --fourier low_pass 0.050000�[0m
Filter Band: Lowpass before 0.05
Filter Shape: Raised cosine with 0.02 raised frequencies
Input File: Runs/001215_ProtRelionExtractParticles/extra/mic_000001.mrcs
Output File: Runs/003808_EmpiarDepositor/tmp/mic_000001.mrcs
�[32m xmipp_transform_filter  -i Runs/001215_ProtRelionExtractParticles/extra/mic_000001.mrcs -o Runs/003808_EmpiarDepositor/tmp/mic_000001.mrcs --fourier low_pass 0.050000�[0m
Filter Band: Lowpass before 0.05
Filter Shape: Raised cosine with 0.02 raised frequencies
Input File: Runs/001215_ProtRelionExtractParticles/extra/mic_000001.mrcs
Output File: Runs/003808_EmpiarDepositor/tmp/mic_000001.mrcs
�[32m xmipp_transform_filter  -i Runs/001215_ProtRelionExtractParticles/extra/mic_000001.mrcs -o Runs/003808_EmpiarDepositor/tmp/mic_000001.mrcs --fourier low_pass 0.050000�[0m
Filter Band: Lowpass before 0.05
Filter Shape: Raised cosine with 0.02 raised frequencies
Input File: Runs/001215_ProtRelionExtractParticles/extra/mic_000001.mrcs
Output File: Runs/003808_EmpiarDepositor/tmp/mic_000001.mrcs
�[32m xmipp_transform_filter  -i Runs/001215_ProtRelionExtractParticles/extra/mic_000001.mrcs -o Runs/003808_EmpiarDepositor/tmp/mic_000001.mrcs --fourier low_pass 0.050000�[0m
Filter Band: Lowpass before 0.05
Filter Shape: Raised cosine with 0.02 raised frequencies
Input File: Runs/001215_ProtRelionExtractParticles/extra/mic_000001.mrcs
Output File: Runs/003808_EmpiarDepositor/tmp/mic_000001.mrcs
�[32m xmipp_transform_filter  -i Runs/001215_ProtRelionExtractParticles/extra/mic_000001.mrcs -o Runs/003808_EmpiarDepositor/tmp/mic_000001.mrcs --fourier low_pass 0.050000�[0m
Filter Band: Lowpass before 0.05
Filter Shape: Raised cosine with 0.02 raised frequencies
Input File: Runs/001215_ProtRelionExtractParticles/extra/mic_000001.mrcs
Output File: Runs/003808_EmpiarDepositor/tmp/mic_000001.mrcs
�[32m xmipp_transform_filter  -i Runs/001215_ProtRelionExtractParticles/extra/mic_000001.mrcs -o Runs/003808_EmpiarDepositor/tmp/mic_000001.mrcs --fourier low_pass 0.050000�[0m
Filter Band: Lowpass before 0.05
Filter Shape: Raised cosine with 0.02 raised frequencies
Input File: Runs/001215_ProtRelionExtractParticles/extra/mic_000001.mrcs
Output File: Runs/003808_EmpiarDepositor/tmp/mic_000001.mrcs
�[32m xmipp_transform_filter  -i Runs/001215_ProtRelionExtractParticles/extra/mic_000001.mrcs -o Runs/003808_EmpiarDepositor/tmp/mic_000001.mrcs --fourier low_pass 0.050000�[0m
Filter Band: Lowpass before 0.05
Filter Shape: Raised cosine with 0.02 raised frequencies
Input File: Runs/001215_ProtRelionExtractParticles/extra/mic_000001.mrcs
Output File: Runs/003808_EmpiarDepositor/tmp/mic_000001.mrcs
�[32m xmipp_transform_filter  -i Runs/001215_ProtRelionExtractParticles/extra/mic_000001.mrcs -o Runs/003808_EmpiarDepositor/tmp/mic_000001.mrcs --fourier low_pass 0.050000�[0m
Filter Band: Lowpass before 0.05
Filter Shape: Raised cosine with 0.02 raised frequencies
Input File: Runs/001215_ProtRelionExtractParticles/extra/mic_000001.mrcs
Output File: Runs/003808_EmpiarDepositor/tmp/mic_000001.mrcs
�[32m xmipp_transform_filter  -i Runs/001215_ProtRelionExtractParticles/extra/mic_000001.mrcs -o Runs/003808_EmpiarDepositor/tmp/mic_000001.mrcs --fourier low_pass 0.050000�[0m
Filter Band: Lowpass before 0.05
Filter Shape: Raised cosine with 0.02 raised frequencies
Input File: Runs/001215_ProtRelionExtractParticles/extra/mic_000001.mrcs
Output File: Runs/003808_EmpiarDepositor/tmp/mic_000001.mrcs
�[32m xmipp_transform_filter  -i Runs/001215_ProtRelionExtractParticles/extra/mic_000001.mrcs -o Runs/003808_EmpiarDepositor/tmp/mic_000001.mrcs --fourier low_pass 0.050000�[0m
Filter Band: Lowpass before 0.05
Filter Shape: Raised cosine with 0.02 raised frequencies
Input File: Runs/001215_ProtRelionExtractParticles/extra/mic_000001.mrcs
Output File: Runs/003808_EmpiarDepositor/tmp/mic_000001.mrcs
�[32m xmipp_transform_filter  -i Runs/001215_ProtRelionExtractParticles/extra/mic_000001.mrcs -o Runs/003808_EmpiarDepositor/tmp/mic_000001.mrcs --fourier low_pass 0.050000�[0m
Filter Band: Lowpass before 0.05
Filter Shape: Raised cosine with 0.02 raised frequencies
Input File: Runs/001215_ProtRelionExtractParticles/extra/mic_000001.mrcs
Output File: Runs/003808_EmpiarDepositor/tmp/mic_000001.mrcs
�[32m xmipp_transform_filter  -i Runs/001215_ProtRelionExtractParticles/extra/mic_000001.mrcs -o Runs/003808_EmpiarDepositor/tmp/mic_000001.mrcs --fourier low_pass 0.050000�[0m
Filter Band: Lowpass before 0.05
Filter Shape: Raised cosine with 0.02 raised frequencies
Input File: Runs/001215_ProtRelionExtractParticles/extra/mic_000001.mrcs
Output File: Runs/003808_EmpiarDepositor/tmp/mic_000001.mrcs
�[32m xmipp_transform_filter  -i Runs/001215_ProtRelionExtractParticles/extra/mic_000001.mrcs -o Runs/003808_EmpiarDepositor/tmp/mic_000001.mrcs --fourier low_pass 0.050000�[0m
Filter Band: Lowpass before 0.05
Filter Shape: Raised cosine with 0.02 raised frequencies
Input File: Runs/001215_ProtRelionExtractParticles/extra/mic_000001.mrcs
Output File: Runs/003808_EmpiarDepositor/tmp/mic_000001.mrcs
output key is outputVol
output key is outputVolume
output key is outputParticles
�[32m xmipp_transform_filter  -i Runs/001215_ProtRelionExtractParticles/extra/mic_000001.mrcs -o Runs/003808_EmpiarDepositor/tmp/mic_000001.mrcs --fourier low_pass 0.050000�[0m
Filter Band: Lowpass before 0.05
Filter Shape: Raised cosine with 0.02 raised frequencies
Input File: Runs/001215_ProtRelionExtractParticles/extra/mic_000001.mrcs
Output File: Runs/003808_EmpiarDepositor/tmp/mic_000001.mrcs
�[32m xmipp_transform_filter  -i Runs/001215_ProtRelionExtractParticles/extra/mic_000001.mrcs -o Runs/003808_EmpiarDepositor/tmp/mic_000001.mrcs --fourier low_pass 0.050000�[0m
Filter Band: Lowpass before 0.05
Filter Shape: Raised cosine with 0.02 raised frequencies
Input File: Runs/001215_ProtRelionExtractParticles/extra/mic_000001.mrcs
Output File: Runs/003808_EmpiarDepositor/tmp/mic_000001.mrcs
�[32m xmipp_transform_filter  -i Runs/001215_ProtRelionExtractParticles/extra/mic_000001.mrcs -o Runs/003808_EmpiarDepositor/tmp/mic_000001.mrcs --fourier low_pass 0.050000�[0m
Filter Band: Lowpass before 0.05
Filter Shape: Raised cosine with 0.02 raised frequencies
Input File: Runs/001215_ProtRelionExtractParticles/extra/mic_000001.mrcs
Output File: Runs/003808_EmpiarDepositor/tmp/mic_000001.mrcs
�[32m xmipp_transform_filter  -i Runs/001215_ProtRelionExtractParticles/extra/mic_000001.mrcs -o Runs/003808_EmpiarDepositor/tmp/mic_000001.mrcs --fourier low_pass 0.050000�[0m
Filter Band: Lowpass before 0.05
Filter Shape: Raised cosine with 0.02 raised frequencies
Input File: Runs/001215_ProtRelionExtractParticles/extra/mic_000001.mrcs
Output File: Runs/003808_EmpiarDepositor/tmp/mic_000001.mrcs
�[32m xmipp_transform_filter  -i Runs/001215_ProtRelionExtractParticles/extra/mic_000001.mrcs -o Runs/003808_EmpiarDepositor/tmp/mic_000001.mrcs --fourier low_pass 0.050000�[0m
Filter Band: Lowpass before 0.05
Filter Shape: Raised cosine with 0.02 raised frequencies
Input File: Runs/001215_ProtRelionExtractParticles/extra/mic_000001.mrcs
Output File: Runs/003808_EmpiarDepositor/tmp/mic_000001.mrcs
�[32m xmipp_transform_filter  -i Runs/001215_ProtRelionExtractParticles/extra/mic_000001.mrcs -o Runs/003808_EmpiarDepositor/tmp/mic_000001.mrcs --fourier low_pass 0.050000�[0m
Filter Band: Lowpass before 0.05
Filter Shape: Raised cosine with 0.02 raised frequencies
Input File: Runs/001215_ProtRelionExtractParticles/extra/mic_000001.mrcs
Output File: Runs/003808_EmpiarDepositor/tmp/mic_000001.mrcs
�[32m xmipp_transform_filter  -i Runs/001215_ProtRelionExtractParticles/extra/mic_000001.mrcs -o Runs/003808_EmpiarDepositor/tmp/mic_000001.mrcs --fourier low_pass 0.050000�[0m
Filter Band: Lowpass before 0.05
Filter Shape: Raised cosine with 0.02 raised frequencies
Input File: Runs/001215_ProtRelionExtractParticles/extra/mic_000001.mrcs
Output File: Runs/003808_EmpiarDepositor/tmp/mic_000001.mrcs
�[32m xmipp_transform_filter  -i Runs/001215_ProtRelionExtractParticles/extra/mic_000001.mrcs -o Runs/003808_EmpiarDepositor/tmp/mic_000001.mrcs --fourier low_pass 0.050000�[0m
Filter Band: Lowpass before 0.05
Filter Shape: Raised cosine with 0.02 raised frequencies
Input File: Runs/001215_ProtRelionExtractParticles/extra/mic_000001.mrcs
Output File: Runs/003808_EmpiarDepositor/tmp/mic_000001.mrcs
�[32m xmipp_transform_filter  -i Runs/001215_ProtRelionExtractParticles/extra/mic_000001.mrcs -o Runs/003808_EmpiarDepositor/tmp/mic_000001.mrcs --fourier low_pass 0.050000�[0m
Filter Band: Lowpass before 0.05
Filter Shape: Raised cosine with 0.02 raised frequencies
Input File: Runs/001215_ProtRelionExtractParticles/extra/mic_000001.mrcs
Output File: Runs/003808_EmpiarDepositor/tmp/mic_000001.mrcs
�[32m xmipp_transform_filter  -i Runs/001215_ProtRelionExtractParticles/extra/mic_000001.mrcs -o Runs/003808_EmpiarDepositor/tmp/mic_000001.mrcs --fourier low_pass 0.050000�[0m
Filter Band: Lowpass before 0.05
Filter Shape: Raised cosine with 0.02 raised frequencies
Input File: Runs/001215_ProtRelionExtractParticles/extra/mic_000001.mrcs
Output File: Runs/003808_EmpiarDepositor/tmp/mic_000001.mrcs
�[32m xmipp_transform_filter  -i Runs/001215_ProtRelionExtractParticles/extra/mic_000001.mrcs -o Runs/003808_EmpiarDepositor/tmp/mic_000001.mrcs --fourier low_pass 0.050000�[0m
Filter Band: Lowpass before 0.05
Filter Shape: Raised cosine with 0.02 raised frequencies
Input File: Runs/001215_ProtRelionExtractParticles/extra/mic_000001.mrcs
Output File: Runs/003808_EmpiarDepositor/tmp/mic_000001.mrcs
�[32m xmipp_transform_filter  -i Runs/001215_ProtRelionExtractParticles/extra/mic_000001.mrcs -o Runs/003808_EmpiarDepositor/tmp/mic_000001.mrcs --fourier low_pass 0.050000�[0m
Filter Band: Lowpass before 0.05
Filter Shape: Raised cosine with 0.02 raised frequencies
Input File: Runs/001215_ProtRelionExtractParticles/extra/mic_000001.mrcs
Output File: Runs/003808_EmpiarDepositor/tmp/mic_000001.mrcs
�[32m xmipp_transform_filter  -i Runs/001215_ProtRelionExtractParticles/extra/mic_000001.mrcs -o Runs/003808_EmpiarDepositor/tmp/mic_000001.mrcs --fourier low_pass 0.050000�[0m
Filter Band: Lowpass before 0.05
Filter Shape: Raised cosine with 0.02 raised frequencies
Input File: Runs/001215_ProtRelionExtractParticles/extra/mic_000001.mrcs
Output File: Runs/003808_EmpiarDepositor/tmp/mic_000001.mrcs
�[32m xmipp_transform_filter  -i Runs/001215_ProtRelionExtractParticles/extra/mic_000001.mrcs -o Runs/003808_EmpiarDepositor/tmp/mic_000001.mrcs --fourier low_pass 0.050000�[0m
Filter Band: Lowpass before 0.05
Filter Shape: Raised cosine with 0.02 raised frequencies
Input File: Runs/001215_ProtRelionExtractParticles/extra/mic_000001.mrcs
Output File: Runs/003808_EmpiarDepositor/tmp/mic_000001.mrcs
�[32m xmipp_transform_filter  -i Runs/001215_ProtRelionExtractParticles/extra/mic_000001.mrcs -o Runs/003808_EmpiarDepositor/tmp/mic_000001.mrcs --fourier low_pass 0.050000�[0m
Filter Band: Lowpass before 0.05
Filter Shape: Raised cosine with 0.02 raised frequencies
Input File: Runs/001215_ProtRelionExtractParticles/extra/mic_000001.mrcs
Output File: Runs/003808_EmpiarDepositor/tmp/mic_000001.mrcs
output key is outputFSC
output key is outputMask
output key is outputClasses
output key is outputMovies
�[32m xmipp_transform_filter  -i Runs/000002_ProtImportMovies/extra/20170629_00021_frameImage.tiff -o Runs/003808_EmpiarDepositor/tmp/20170629_00021_frameImage.tiff --fourier low_pass 0.050000�[0m
Filter Band: Lowpass before 0.05
Filter Shape: Raised cosine with 0.02 raised frequencies
Input File: Runs/000002_ProtImportMovies/extra/20170629_00021_frameImage.tiff
Output File: Runs/003808_EmpiarDepositor/tmp/20170629_00021_frameImage.tiff

Why is it lowpass filtering movies? Why is it processing other protocols from my project?

Downloader...make it work for micrographs

It partially works in the send that download is happening but is it registered as setOfMovies whereas is should be a set of micrographs
https://www.ebi.ac.uk/empiar/EMPIAR-10341/ this dataset has deposited micrographs.