Commit 8d034955 authored by Mike Cichonski's avatar Mike Cichonski
Browse files

added local pipeline batch configs and small typo fix in seg script

parent 85683e03
file_name
c01_scalpart_remote.cfg
exec_func
ef_current_base
replace_string
[in_path],[]
[montage_info],
[staging_script],
[aref_trim],30
[recur_sec],1
[limit_sec],[0 1]
[sd_t_meth],q
[sd_t_vals],[.3 .7]
[sd_t_o],12
[sd_t_f_meth],fixed
[sd_t_f_vals],
[sd_t_f_o],.3
[sd_t_pad],1
[sd_ch_meth],q
[sd_ch_vals],[.3 .7]
[sd_ch_o],12
[sd_ch_f_meth],fixed
[sd_ch_f_vals],
[sd_ch_f_o],.3
[ref_loc_file],derivatives/lossless/code/misc/standard_1020_bucanl19.elc
[low_bound_hz],1
[high_bound_hz],
[save_f_res],1
[n_nbr_ch],3
[r_ch_meth],q
[r_ch_vals],[.3 .7]
[r_ch_o],12
[r_ch_f_meth],fixed
[r_ch_f_vals],
[r_ch_f_o],.3
[bridge_trim],40
[bridge_z],6
[n_nbr_t],3
[r_t_meth],q
[r_t_vals],[.3 .7]
[r_t_o],12
[r_t_f_meth],fixed
[r_t_f_vals],
[r_t_f_o],.3
[min_gap_ms],2000
[out_path],derivatives/lossless
[amica_param_file],derivatives/lossless/code/misc/amica15_default.param
[amica_threads_s02],8
order
1
session_init
job_name
mfile_name
[/,-1,batch_dfn,.,-1]
job_init
m_init
submit_options
memory
time_limit
mpi
false
num_tasks
threads_per_task
software
matlab
program_options
file_name
c02_amica_init_remote.cfg
exec_func
ef_current_base
replace_string
[dep_path],derivatives/lossless/code/dependencies/eeglab_asr_amica/plugins/amica
[in_path],[]
[amica_ver],amica15ub
order
[2 1]
session_init
job_name
[batch_hfn,.,1]_[/,-1,batch_dfn,.,-1]
mfile_name
[/,-1,batch_dfn,.,-1]
job_init
m_init
submit_options
memory
time_limit
mpi
true
num_tasks
threads_per_task
8
software
none
program_options
file_name
c03_compart_data_remote.cfg
exec_func
ef_sbatch
replace_string
[in_path],derivatives/lossless
[recur_sec],1
[limit_sec],[0 1]
[sd_t_meth],q
[sd_t_vals],[.3 .7]
[sd_t_o],6
[sd_t_f_meth],fixed
[sd_t_f_vals],
[sd_t_f_o],.2
[min_gap_ms],2000
[out_path],derivatives/lossless
[amica_param_file],derivatives/lossless/code/misc/amica_default.param
[amica_threads_s04],8
order
[3 2]
session_init
job_name
mfile_name
[/,-1,batch_dfn,.,-1]
job_init
m_init
submit_options
memory
time_limit
mpi
false
num_tasks
threads_per_task
software
matlab
program_options
file_name
c04a_amica_remote.cfg
exec_func
ef_current_base
replace_string
[dep_path],derivatives/lossless/code/dependencies/eeglab_asr_amica/plugins/amica
[in_path],analysis/data/2_preproc
[amica_ver],amica15ub
order
[4 3]
session_init
job_name
[batch_hfn,.,1]_[/,-1,batch_dfn,.,-1]
mfile_name
[/,-1,batch_dfn,.,-1]
job_init
m_init
submit_options
memory
time_limit
mpi
true
num_tasks
threads_per_task
8
software
none
program_options
file_name
c04b_amica_remote.cfg
exec_func
ef_current_base
replace_string
[dep_path],derivatives/lossless/code/dependencies/eeglab_asr_amica/plugins/amica
[in_path],analysis/data/2_preproc
[amica_ver],amica15ub
order
[4 3]
session_init
job_name
[batch_hfn,.,1]_[/,-1,batch_dfn,.,-1]
mfile_name
[/,-1,batch_dfn,.,-1]
job_init
m_init
submit_options
memory
time_limit
mpi
true
num_tasks
threads_per_task
8
software
none
program_options
file_name
c04c_amica_remote.cfg
exec_func
ef_current_base
replace_string
[dep_path],derivatives/lossless/code/dependencies/eeglab_asr_amica/plugins/amica
[in_path],analysis/data/2_preproc
[amica_ver],amica15ub
order
[4 3]
session_init
job_name
[batch_hfn,.,1]_[/,-1,batch_dfn,.,-1]
mfile_name
[/,-1,batch_dfn,.,-1]
job_init
m_init
submit_options
memory
time_limit
mpi
true
num_tasks
threads_per_task
8
software
none
program_options
file_name
c05_concat_data_remote.cfg
exec_func
ef_current_base
replace_string
[in_path],derivatives/lossless
[recur_sec],1
[limit_sec],[0 1]
[sd_t_meth],q
[sd_t_vals],[.3 .7]
[sd_t_o],6
[sd_t_f_meth],fixed
[sd_t_f_vals],
[sd_t_f_o],.2
[min_gap_ms],2000
[icr_crit],0.05
[dip_vol], derivatives/lossless/code/misc/standard_vol.mat
[dip_mri], derivatives/lossless/code/misc/standard_mri.mat
[dip_elc], derivatives/lossless/code/misc/standard_1020.elc
[dip_transmat], [0 0 0 0 0 0 1 1 1]
[cor_transmat], [0,0,0,0,0,1.57,1,1,1]
[cor_nosedir], +X
[out_path],derivatives/lossless
order
[5 4]
session_init
job_name
mfile_name
[/,-1,batch_dfn,.,-1]
job_init
m_init
submit_options
memory
time_limit
mpi
false
num_tasks
threads_per_task
8
software
matlab
program_options
...@@ -117,7 +117,7 @@ EEG = pop_marks_select_data(EEG,'component marks',[],'labels',{'manual'},'remove ...@@ -117,7 +117,7 @@ EEG = pop_marks_select_data(EEG,'component marks',[],'labels',{'manual'},'remove
EEG = eeg_checkset(EEG); EEG = eeg_checkset(EEG);
logging_log('INFO', 'TIME TO: PURGE DATA...'); logging_log('INFO', 'TIME TO: PURGE DATA...');
if strncmp('[reref]','on'); if strcmp('[reref]','on');
EEG = pop_reref(EEG,[]); EEG = pop_reref(EEG,[]);
end; end;
...@@ -146,7 +146,7 @@ if ([[high_bound_hz]]); ...@@ -146,7 +146,7 @@ if ([[high_bound_hz]]);
EEG = pop_eegfiltnew(EEG,[],[[high_bound_hz]],[],0,[],0); EEG = pop_eegfiltnew(EEG,[],[[high_bound_hz]],[],0,[],0);
end; end;
if strncmp('[reref]','on'); if strcmp('[reref]','on');
EEG = pop_reref(EEG,[]); EEG = pop_reref(EEG,[]);
end; end;
......
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