Python cnv_dcm примеры использования

Пример #1

Файл: p7648_run1L4.py Проект: nyspisoccog/ks_scripts

from __future__ import with_statement
import os, csv, shutil,tarfile, uf, dcm_ops
dest_root = '/ifs/scratch/pimri/soccog/test_working'
dst_path_lst = ['7648', 'run1L4']
uf.buildtree(dest_root, dst_path_lst)
uf.copytree('/ifs/scratch/pimri/soccog/old/SocCog_Raw_Data_By_Exam_Number/3310/E3310_e161637/s167370_1904_s6', '/ifs/scratch/pimri/soccog/test_working/7648/run1L4')
t = tarfile.open(os.path.join('/ifs/scratch/pimri/soccog/test_working/7648/run1L4','MRDC_files.tar.gz'), 'r')
t.extractall('/ifs/scratch/pimri/soccog/test_working/7648/run1L4')
for f in os.listdir('/ifs/scratch/pimri/soccog/test_working/7648/run1L4'):
   if 'MRDC' in f and 'gz' not in f:
       old = os.path.join('/ifs/scratch/pimri/soccog/test_working/7648/run1L4', f)
       new = os.path.join('/ifs/scratch/pimri/soccog/test_working/7648/run1L4', f + '.dcm')
       os.rename(old, new)
qsub_cnv_out = dcm_ops.cnv_dcm('/ifs/scratch/pimri/soccog/test_working/7648/run1L4', '7648_run1L4', '/ifs/scratch/pimri/soccog/scripts/mastersort/scripts_dir/cnv')
#qsub_cln_out = dcm_ops.cnv_dcm('/ifs/scratch/pimri/soccog/test_working/7648/run1L4', '7648_run1L4', '/ifs/scratch/pimri/soccog/scripts/mastersort/scripts_dir/cln')

Пример #2

Файл: p7714_run2M6.py Проект: nyspisoccog/ks_scripts

from __future__ import with_statement
import os, csv, shutil,tarfile, uf, dcm_ops
dest_root = '/ifs/scratch/pimri/soccog/test_working'
dst_path_lst = ['7714', 'run2M6']
uf.buildtree(dest_root, dst_path_lst)
uf.copytree('/ifs/scratch/pimri/soccog/old/SocCog_Raw_Data_By_Exam_Number/3189/E3189_e976517/s1061831_5610_2M6_s34', '/ifs/scratch/pimri/soccog/test_working/7714/run2M6')
t = tarfile.open(os.path.join('/ifs/scratch/pimri/soccog/test_working/7714/run2M6','MRDC_files.tar.gz'), 'r')
t.extractall('/ifs/scratch/pimri/soccog/test_working/7714/run2M6')
for f in os.listdir('/ifs/scratch/pimri/soccog/test_working/7714/run2M6'):
   if 'MRDC' in f and 'gz' not in f:
       old = os.path.join('/ifs/scratch/pimri/soccog/test_working/7714/run2M6', f)
       new = os.path.join('/ifs/scratch/pimri/soccog/test_working/7714/run2M6', f + '.dcm')
       os.rename(old, new)
qsub_cnv_out = dcm_ops.cnv_dcm('/ifs/scratch/pimri/soccog/test_working/7714/run2M6', '7714_run2M6', '/ifs/scratch/pimri/soccog/scripts/mastersort/scripts_dir/cnv')
#qsub_cln_out = dcm_ops.cnv_dcm('/ifs/scratch/pimri/soccog/test_working/7714/run2M6', '7714_run2M6', '/ifs/scratch/pimri/soccog/scripts/mastersort/scripts_dir/cln')

Пример #3

Файл: p7645_anat-1-1.py Проект: nyspisoccog/ks_scripts

from __future__ import with_statement
import os, csv, shutil,tarfile, uf, dcm_ops
dest_root = '/ifs/scratch/pimri/soccog/test_working'
dst_path_lst = ['7645', 'anat-1-1']
uf.buildtree(dest_root, dst_path_lst)
uf.copytree('/ifs/scratch/pimri/soccog/old/SocCog_Raw_Data_By_Exam_Number/3078/E3078_e1370606/s1382088_166_fspgr_s9', '/ifs/scratch/pimri/soccog/test_working/7645/anat-1-1')
t = tarfile.open(os.path.join('/ifs/scratch/pimri/soccog/test_working/7645/anat-1-1','MRDC_files.tar.gz'), 'r')
t.extractall('/ifs/scratch/pimri/soccog/test_working/7645/anat-1-1')
for f in os.listdir('/ifs/scratch/pimri/soccog/test_working/7645/anat-1-1'):
   if 'MRDC' in f and 'gz' not in f:
       old = os.path.join('/ifs/scratch/pimri/soccog/test_working/7645/anat-1-1', f)
       new = os.path.join('/ifs/scratch/pimri/soccog/test_working/7645/anat-1-1', f + '.dcm')
       os.rename(old, new)
qsub_cnv_out = dcm_ops.cnv_dcm('/ifs/scratch/pimri/soccog/test_working/7645/anat-1-1', '7645_anat-1-1', '/ifs/scratch/pimri/soccog/scripts/mastersort/scripts_dir/cnv')
#qsub_cln_out = dcm_ops.cnv_dcm('/ifs/scratch/pimri/soccog/test_working/7645/anat-1-1', '7645_anat-1-1', '/ifs/scratch/pimri/soccog/scripts/mastersort/scripts_dir/cln')

Пример #4

Файл: p7478_run1M3.py Проект: nyspisoccog/ks_scripts

from __future__ import with_statement
import os, csv, shutil, tarfile, uf, dcm_ops

dest_root = "/ifs/scratch/pimri/soccog/test_working"
dst_path_lst = ["7478", "run1M3"]
uf.buildtree(dest_root, dst_path_lst)
uf.copytree(
    "/ifs/scratch/pimri/soccog/old/SocCog_Raw_Data_By_Exam_Number/2489/E2489_e1477970/s1501031_5610_1M3_s14",
    "/ifs/scratch/pimri/soccog/test_working/7478/run1M3",
)
t = tarfile.open(os.path.join("/ifs/scratch/pimri/soccog/test_working/7478/run1M3", "MRDC_files.tar.gz"), "r")
t.extractall("/ifs/scratch/pimri/soccog/test_working/7478/run1M3")
for f in os.listdir("/ifs/scratch/pimri/soccog/test_working/7478/run1M3"):
    if "MRDC" in f and "gz" not in f:
        old = os.path.join("/ifs/scratch/pimri/soccog/test_working/7478/run1M3", f)
        new = os.path.join("/ifs/scratch/pimri/soccog/test_working/7478/run1M3", f + ".dcm")
        os.rename(old, new)
qsub_cnv_out = dcm_ops.cnv_dcm(
    "/ifs/scratch/pimri/soccog/test_working/7478/run1M3",
    "7478_run1M3",
    "/ifs/scratch/pimri/soccog/scripts/mastersort/scripts_dir/cnv",
)
# qsub_cln_out = dcm_ops.cnv_dcm('/ifs/scratch/pimri/soccog/test_working/7478/run1M3', '7478_run1M3', '/ifs/scratch/pimri/soccog/scripts/mastersort/scripts_dir/cln')

Пример #5

Файл: p7607_anat-1-2.py Проект: nyspisoccog/ks_scripts

from __future__ import with_statement
import os, csv, shutil, tarfile, uf, dcm_ops

dest_root = "/ifs/scratch/pimri/soccog/test_working"
dst_path_lst = ["7607", "anat-1-2"]
uf.buildtree(dest_root, dst_path_lst)
uf.copytree(
    "/ifs/scratch/pimri/soccog/old/SocCog_Raw_Data_By_Exam_Number/3380/E3380_e149485/s162275_166_s13",
    "/ifs/scratch/pimri/soccog/test_working/7607/anat-1-2",
)
t = tarfile.open(os.path.join("/ifs/scratch/pimri/soccog/test_working/7607/anat-1-2", "MRDC_files.tar.gz"), "r")
t.extractall("/ifs/scratch/pimri/soccog/test_working/7607/anat-1-2")
for f in os.listdir("/ifs/scratch/pimri/soccog/test_working/7607/anat-1-2"):
    if "MRDC" in f and "gz" not in f:
        old = os.path.join("/ifs/scratch/pimri/soccog/test_working/7607/anat-1-2", f)
        new = os.path.join("/ifs/scratch/pimri/soccog/test_working/7607/anat-1-2", f + ".dcm")
        os.rename(old, new)
qsub_cnv_out = dcm_ops.cnv_dcm(
    "/ifs/scratch/pimri/soccog/test_working/7607/anat-1-2",
    "7607_anat-1-2",
    "/ifs/scratch/pimri/soccog/scripts/mastersort/scripts_dir/cnv",
)
# qsub_cln_out = dcm_ops.cnv_dcm('/ifs/scratch/pimri/soccog/test_working/7607/anat-1-2', '7607_anat-1-2', '/ifs/scratch/pimri/soccog/scripts/mastersort/scripts_dir/cln')

Пример #6

Файл: p7542_run2L5.py Проект: nyspisoccog/ks_scripts

from __future__ import with_statement
import os, csv, shutil, tarfile, uf, dcm_ops

dest_root = "/ifs/scratch/pimri/soccog/test_working"
dst_path_lst = ["7542", "run2L5"]
uf.buildtree(dest_root, dst_path_lst)
uf.copytree(
    "/ifs/scratch/pimri/soccog/old/SocCog_Raw_Data_By_Exam_Number/2727/E2727_e363504/s416629_1904_2L5_s24",
    "/ifs/scratch/pimri/soccog/test_working/7542/run2L5",
)
t = tarfile.open(os.path.join("/ifs/scratch/pimri/soccog/test_working/7542/run2L5", "MRDC_files.tar.gz"), "r")
t.extractall("/ifs/scratch/pimri/soccog/test_working/7542/run2L5")
for f in os.listdir("/ifs/scratch/pimri/soccog/test_working/7542/run2L5"):
    if "MRDC" in f and "gz" not in f:
        old = os.path.join("/ifs/scratch/pimri/soccog/test_working/7542/run2L5", f)
        new = os.path.join("/ifs/scratch/pimri/soccog/test_working/7542/run2L5", f + ".dcm")
        os.rename(old, new)
qsub_cnv_out = dcm_ops.cnv_dcm(
    "/ifs/scratch/pimri/soccog/test_working/7542/run2L5",
    "7542_run2L5",
    "/ifs/scratch/pimri/soccog/scripts/mastersort/scripts_dir/cnv",
)
# qsub_cln_out = dcm_ops.cnv_dcm('/ifs/scratch/pimri/soccog/test_working/7542/run2L5', '7542_run2L5', '/ifs/scratch/pimri/soccog/scripts/mastersort/scripts_dir/cln')

Пример #7

Файл: p7458_anat-2-2.py Проект: nyspisoccog/ks_scripts

from __future__ import with_statement
import os, csv, shutil,tarfile, uf, dcm_ops
dest_root = '/ifs/scratch/pimri/soccog/test_working'
dst_path_lst = ['7458', 'anat-2-2']
uf.buildtree(dest_root, dst_path_lst)
uf.copytree('/ifs/scratch/pimri/soccog/old/SocCog_Raw_Data_By_Exam_Number/2434/E2434_e1155724/s1214465_166_SPGR4_s30', '/ifs/scratch/pimri/soccog/test_working/7458/anat-2-2')
t = tarfile.open(os.path.join('/ifs/scratch/pimri/soccog/test_working/7458/anat-2-2','MRDC_files.tar.gz'), 'r')
t.extractall('/ifs/scratch/pimri/soccog/test_working/7458/anat-2-2')
for f in os.listdir('/ifs/scratch/pimri/soccog/test_working/7458/anat-2-2'):
   if 'MRDC' in f and 'gz' not in f:
       old = os.path.join('/ifs/scratch/pimri/soccog/test_working/7458/anat-2-2', f)
       new = os.path.join('/ifs/scratch/pimri/soccog/test_working/7458/anat-2-2', f + '.dcm')
       os.rename(old, new)
qsub_cnv_out = dcm_ops.cnv_dcm('/ifs/scratch/pimri/soccog/test_working/7458/anat-2-2', '7458_anat-2-2', '/ifs/scratch/pimri/soccog/scripts/mastersort/scripts_dir/cnv')
#qsub_cln_out = dcm_ops.cnv_dcm('/ifs/scratch/pimri/soccog/test_working/7458/anat-2-2', '7458_anat-2-2', '/ifs/scratch/pimri/soccog/scripts/mastersort/scripts_dir/cln')

Пример #8

Файл: p7575_anat-2-1.py Проект: nyspisoccog/ks_scripts

from __future__ import with_statement
import os, csv, shutil, tarfile, uf, dcm_ops

dest_root = "/ifs/scratch/pimri/soccog/test_working"
dst_path_lst = ["7575", "anat-2-1"]
uf.buildtree(dest_root, dst_path_lst)
uf.copytree(
    "/ifs/scratch/pimri/soccog/old/SocCog_Raw_Data_By_Exam_Number/3184/E3184_e858822/s915746_166_fspgr_s27",
    "/ifs/scratch/pimri/soccog/test_working/7575/anat-2-1",
)
t = tarfile.open(os.path.join("/ifs/scratch/pimri/soccog/test_working/7575/anat-2-1", "MRDC_files.tar.gz"), "r")
t.extractall("/ifs/scratch/pimri/soccog/test_working/7575/anat-2-1")
for f in os.listdir("/ifs/scratch/pimri/soccog/test_working/7575/anat-2-1"):
    if "MRDC" in f and "gz" not in f:
        old = os.path.join("/ifs/scratch/pimri/soccog/test_working/7575/anat-2-1", f)
        new = os.path.join("/ifs/scratch/pimri/soccog/test_working/7575/anat-2-1", f + ".dcm")
        os.rename(old, new)
qsub_cnv_out = dcm_ops.cnv_dcm(
    "/ifs/scratch/pimri/soccog/test_working/7575/anat-2-1",
    "7575_anat-2-1",
    "/ifs/scratch/pimri/soccog/scripts/mastersort/scripts_dir/cnv",
)
# qsub_cln_out = dcm_ops.cnv_dcm('/ifs/scratch/pimri/soccog/test_working/7575/anat-2-1', '7575_anat-2-1', '/ifs/scratch/pimri/soccog/scripts/mastersort/scripts_dir/cln')