891e580bc8e66d0d81c2334c507cd1b10f93cbc2,pynets/utils.py,,reorient_img,#Any#Any#,989

Before Change

            cmd = "fslswapdim " + img + " -x -y z " + img_PA
            os.system(cmd)
            cmd = "fslorient -getqform " + img_PA
            qform = os.popen(cmd).read().strip("\n")
            img = img_PA
            reoriented = True
        // Inferior-Superior Reorientation
        if float(qform.split(" ")[:-1][10]) <= 0:

After Change

            os.system(cmd)
            cmd = "fslorient -getqform " + img_PA
            cmd_run = os.popen(cmd)
            qform = cmd_run.read().strip("\n")
            cmd_run.close()
            img = img_PA
        // Inferior-Superior Reorientation
        if float(qform.split(" ")[:-1][10]) <= 0:
            img_IS = "{}/img_reor_IS.nii.gz".format(out_dir)
            print("Reorienting I-S flip (img)...")
            cmd = "fslswapdim " + img + " -x y -z " + img_IS
            os.system(cmd)
            img = img_IS
        cmd = "fslorient -forceradiological " + img
        os.system(cmd)
    else:
        print("Radiological (img)...")
        // Posterior-Anterior Reorientation
        if float(qform.split(" ")[:-1][5]) <= 0:
            img_PA = "{}/img_reor_PA.nii.gz".format(out_dir)
            print("Reorienting P-A flip (img)...")
            cmd = "fslswapdim " + img + " -x -y z " + img_PA
            os.system(cmd)
            cmd = "fslorient -getqform " + img_PA
            cmd_run = os.popen(cmd)
            qform = cmd_run.read().strip("\n")
            cmd_run.close()
            img = img_PA
            reoriented = True
        // Inferior-Superior Reorientation
        if float(qform.split(" ")[:-1][10]) <= 0:

Instances