Hi Bruce

mri_info The output is as following. Please tell me if you need the dicom. Thank you for your attention.

Knut J mri_info /home/freesurfer/subjects/dicom/9999/1.dcm INFO: Found 324 files in /home/freesurfer/subjects/dicom/9999 INFO: Scanning for Series Number 17 INFO: found 320 files in series INFO: Scanning for Series Number 17 INFO: found 320 files in series

RunNo = 16 Getting Series No Scanning Directory INFO: loading series header info. INFO: sorting. WARNING: files are not found to be different and cannot be sorted File1: /home/freesurfer/subjects/dicom/9999/1.dcm File2: /home/freesurfer/subjects/dicom/9999/161.dcm WARNING: files are not found to be different and cannot be sorted File1: /home/freesurfer/subjects/dicom/9999/10.dcm File2: /home/freesurfer/subjects/dicom/9999/170.dcm WARNING: files are not found to be different and cannot be sorted File1: /home/freesurfer/subjects/dicom/9999/178.dcm File2: /home/freesurfer/subjects/dicom/9999/18.dcm WARNING: files are not found to be different and cannot be sorted File1: /home/freesurfer/subjects/dicom/9999/179.dcm File2: /home/freesurfer/subjects/dicom/9999/19.dcm WARNING: files are not found to be different and cannot be sorted File1: /home/freesurfer/subjects/dicom/9999/180.dcm File2: /home/freesurfer/subjects/dicom/9999/20.dcm WARNING: files are not found to be different and cannot be sorted File1: /home/freesurfer/subjects/dicom/9999/181.dcm File2: /home/freesurfer/subjects/dicom/9999/21.dcm WARNING: files are not found to be different and cannot be sorted File1: /home/freesurfer/subjects/dicom/9999/182.dcm File2: /home/freesurfer/subjects/dicom/9999/22.dcm WARNING: files are not found to be different and cannot be sorted File1: /home/freesurfer/subjects/dicom/9999/183.dcm File2: /home/freesurfer/subjects/dicom/9999/23.dcm WARNING: files are not found to be different and cannot be sorted File1: /home/freesurfer/subjects/dicom/9999/184.dcm File2: /home/freesurfer/subjects/dicom/9999/24.dcm WARNING: files are not found to be different and cannot be sorted File1: /home/freesurfer/subjects/dicom/9999/162.dcm File2: /home/freesurfer/subjects/dicom/9999/2.dcm WARNING: files are not found to be different and cannot be sorted File1: /home/freesurfer/subjects/dicom/9999/11.dcm File2: /home/freesurfer/subjects/dicom/9999/171.dcm WARNING: files are not found to be different and cannot be sorted File1: /home/freesurfer/subjects/dicom/9999/12.dcm File2: /home/freesurfer/subjects/dicom/9999/172.dcm WARNING: files are not found to be different and cannot be sorted File1: /home/freesurfer/subjects/dicom/9999/13.dcm File2: /home/freesurfer/subjects/dicom/9999/173.dcm WARNING: files are not found to be different and cannot be sorted File1: /home/freesurfer/subjects/dicom/9999/14.dcm File2: /home/freesurfer/subjects/dicom/9999/174.dcm WARNING: files are not found to be different and cannot be sorted File1: /home/freesurfer/subjects/dicom/9999/15.dcm File2: /home/freesurfer/subjects/dicom/9999/175.dcm WARNING: files are not found to be different and cannot be sorted File1: /home/freesurfer/subjects/dicom/9999/16.dcm File2: /home/freesurfer/subjects/dicom/9999/176.dcm WARNING: files are not found to be different and cannot be sorted File1: /home/freesurfer/subjects/dicom/9999/17.dcm File2: /home/freesurfer/subjects/dicom/9999/177.dcm WARNING: files are not found to be different and cannot be sorted File1: /home/freesurfer/subjects/dicom/9999/243.dcm File2: /home/freesurfer/subjects/dicom/9999/83.dcm WARNING: files are not found to be different and cannot be sorted File1: /home/freesurfer/subjects/dicom/9999/244.dcm File2: /home/freesurfer/subjects/dicom/9999/84.dcm WARNING: files are not found to be different and cannot be sorted File1: /home/freesurfer/subjects/dicom/9999/245.dcm File2: /home/freesurfer/subjects/dicom/9999/85.dcm WARNING: files are not found to be different and cannot be sorted File1: /home/freesurfer/subjects/dicom/9999/246.dcm File2: /home/freesurfer/subjects/dicom/9999/86.dcm WARNING: files are not found to be different and cannot be sorted File1: /home/freesurfer/subjects/dicom/9999/247.dcm File2: /home/freesurfer/subjects/dicom/9999/87.dcm WARNING: files are not found to be different and cannot be sorted File1: /home/freesurfer/subjects/dicom/9999/248.dcm File2: /home/freesurfer/subjects/dicom/9999/88.dcm WARNING: files are not found to be different and cannot be sorted File1: /home/freesurfer/subjects/dicom/9999/249.dcm File2: /home/freesurfer/subjects/dicom/9999/89.dcm WARNING: files are not found to be different and cannot be sorted File1: /home/freesurfer/subjects/dicom/9999/250.dcm File2: /home/freesurfer/subjects/dicom/9999/90.dcm WARNING: files are not found to be different and cannot be sorted File1: /home/freesurfer/subjects/dicom/9999/251.dcm File2: /home/freesurfer/subjects/dicom/9999/91.dcm WARNING: files are not found to be different and cannot be sorted File1: /home/freesurfer/subjects/dicom/9999/252.dcm File2: /home/freesurfer/subjects/dicom/9999/92.dcm WARNING: files are not found to be different and cannot be sorted File1: /home/freesurfer/subjects/dicom/9999/253.dcm File2: /home/freesurfer/subjects/dicom/9999/93.dcm WARNING: files are not found to be different and cannot be sorted File1: /home/freesurfer/subjects/dicom/9999/254.dcm File2: /home/freesurfer/subjects/dicom/9999/94.dcm WARNING: files are not found to be different and cannot be sorted File1: /home/freesurfer/subjects/dicom/9999/255.dcm File2: /home/freesurfer/subjects/dicom/9999/95.dcm WARNING: files are not found to be different and cannot be sorted File1: /home/freesurfer/subjects/dicom/9999/256.dcm File2: /home/freesurfer/subjects/dicom/9999/96.dcm WARNING: files are not found to be different and cannot be sorted File1: /home/freesurfer/subjects/dicom/9999/257.dcm File2: /home/freesurfer/subjects/dicom/9999/97.dcm WARNING: files are not found to be different and cannot be sorted File1: /home/freesurfer/subjects/dicom/9999/258.dcm File2: /home/freesurfer/subjects/dicom/9999/98.dcm WARNING: files are not found to be different and cannot be sorted File1: /home/freesurfer/subjects/dicom/9999/259.dcm File2: /home/freesurfer/subjects/dicom/9999/99.dcm WARNING: files are not found to be different and cannot be sorted File1: /home/freesurfer/subjects/dicom/9999/163.dcm File2: /home/freesurfer/subjects/dicom/9999/3.dcm WARNING: files are not found to be different and cannot be sorted File1: /home/freesurfer/subjects/dicom/9999/164.dcm File2: /home/freesurfer/subjects/dicom/9999/4.dcm WARNING: files are not found to be different and cannot be sorted File1: /home/freesurfer/subjects/dicom/9999/165.dcm File2: /home/freesurfer/subjects/dicom/9999/5.dcm WARNING: files are not found to be different and cannot be sorted File1: /home/freesurfer/subjects/dicom/9999/166.dcm File2: /home/freesurfer/subjects/dicom/9999/6.dcm WARNING: files are not found to be different and cannot be sorted File1: /home/freesurfer/subjects/dicom/9999/167.dcm File2: /home/freesurfer/subjects/dicom/9999/7.dcm WARNING: files are not found to be different and cannot be sorted File1: /home/freesurfer/subjects/dicom/9999/168.dcm File2: /home/freesurfer/subjects/dicom/9999/8.dcm WARNING: files are not found to be different and cannot be sorted File1: /home/freesurfer/subjects/dicom/9999/169.dcm File2: /home/freesurfer/subjects/dicom/9999/9.dcm WARNING: files are not found to be different and cannot be sorted File1: /home/freesurfer/subjects/dicom/9999/185.dcm File2: /home/freesurfer/subjects/dicom/9999/25.dcm WARNING: files are not found to be different and cannot be sorted File1: /home/freesurfer/subjects/dicom/9999/186.dcm File2: /home/freesurfer/subjects/dicom/9999/26.dcm WARNING: files are not found to be different and cannot be sorted File1: /home/freesurfer/subjects/dicom/9999/187.dcm File2: /home/freesurfer/subjects/dicom/9999/27.dcm WARNING: files are not found to be different and cannot be sorted File1: /home/freesurfer/subjects/dicom/9999/188.dcm File2: /home/freesurfer/subjects/dicom/9999/28.dcm WARNING: files are not found to be different and cannot be sorted File1: /home/freesurfer/subjects/dicom/9999/189.dcm File2: /home/freesurfer/subjects/dicom/9999/29.dcm WARNING: files are not found to be different and cannot be sorted File1: /home/freesurfer/subjects/dicom/9999/190.dcm File2: /home/freesurfer/subjects/dicom/9999/30.dcm WARNING: files are not found to be different and cannot be sorted File1: /home/freesurfer/subjects/dicom/9999/191.dcm File2: /home/freesurfer/subjects/dicom/9999/31.dcm WARNING: files are not found to be different and cannot be sorted File1: /home/freesurfer/subjects/dicom/9999/192.dcm File2: /home/freesurfer/subjects/dicom/9999/32.dcm WARNING: files are not found to be different and cannot be sorted File1: /home/freesurfer/subjects/dicom/9999/193.dcm File2: /home/freesurfer/subjects/dicom/9999/33.dcm WARNING: files are not found to be different and cannot be sorted File1: /home/freesurfer/subjects/dicom/9999/194.dcm File2: /home/freesurfer/subjects/dicom/9999/34.dcm WARNING: files are not found to be different and cannot be sorted File1: /home/freesurfer/subjects/dicom/9999/195.dcm File2: /home/freesurfer/subjects/dicom/9999/35.dcm WARNING: files are not found to be different and cannot be sorted File1: /home/freesurfer/subjects/dicom/9999/196.dcm File2: /home/freesurfer/subjects/dicom/9999/36.dcm WARNING: files are not found to be different and cannot be sorted File1: /home/freesurfer/subjects/dicom/9999/197.dcm File2: /home/freesurfer/subjects/dicom/9999/37.dcm WARNING: files are not found to be different and cannot be sorted File1: /home/freesurfer/subjects/dicom/9999/198.dcm File2: /home/freesurfer/subjects/dicom/9999/38.dcm WARNING: files are not found to be different and cannot be sorted File1: /home/freesurfer/subjects/dicom/9999/199.dcm File2: /home/freesurfer/subjects/dicom/9999/39.dcm WARNING: files are not found to be different and cannot be sorted File1: /home/freesurfer/subjects/dicom/9999/200.dcm File2: /home/freesurfer/subjects/dicom/9999/40.dcm WARNING: files are not found to be different and cannot be sorted File1: /home/freesurfer/subjects/dicom/9999/201.dcm File2: /home/freesurfer/subjects/dicom/9999/41.dcm WARNING: files are not found to be different and cannot be sorted File1: /home/freesurfer/subjects/dicom/9999/202.dcm File2: /home/freesurfer/subjects/dicom/9999/42.dcm WARNING: files are not found to be different and cannot be sorted File1: /home/freesurfer/subjects/dicom/9999/203.dcm File2: /home/freesurfer/subjects/dicom/9999/43.dcm WARNING: files are not found to be different and cannot be sorted File1: /home/freesurfer/subjects/dicom/9999/204.dcm File2: /home/freesurfer/subjects/dicom/9999/44.dcm WARNING: files are not found to be different and cannot be sorted File1: /home/freesurfer/subjects/dicom/9999/205.dcm File2: /home/freesurfer/subjects/dicom/9999/45.dcm WARNING: files are not found to be different and cannot be sorted File1: /home/freesurfer/subjects/dicom/9999/206.dcm File2: /home/freesurfer/subjects/dicom/9999/46.dcm WARNING: files are not found to be different and cannot be sorted File1: /home/freesurfer/subjects/dicom/9999/207.dcm File2: /home/freesurfer/subjects/dicom/9999/47.dcm WARNING: files are not found to be different and cannot be sorted File1: /home/freesurfer/subjects/dicom/9999/208.dcm File2: /home/freesurfer/subjects/dicom/9999/48.dcm WARNING: files are not found to be different and cannot be sorted File1: /home/freesurfer/subjects/dicom/9999/209.dcm File2: /home/freesurfer/subjects/dicom/9999/49.dcm WARNING: files are not found to be different and cannot be sorted File1: /home/freesurfer/subjects/dicom/9999/210.dcm File2: /home/freesurfer/subjects/dicom/9999/50.dcm WARNING: files are not found to be different and cannot be sorted File1: /home/freesurfer/subjects/dicom/9999/211.dcm File2: /home/freesurfer/subjects/dicom/9999/51.dcm WARNING: files are not found to be different and cannot be sorted File1: /home/freesurfer/subjects/dicom/9999/212.dcm File2: /home/freesurfer/subjects/dicom/9999/52.dcm WARNING: files are not found to be different and cannot be sorted File1: /home/freesurfer/subjects/dicom/9999/213.dcm File2: /home/freesurfer/subjects/dicom/9999/53.dcm WARNING: files are not found to be different and cannot be sorted File1: /home/freesurfer/subjects/dicom/9999/214.dcm File2: /home/freesurfer/subjects/dicom/9999/54.dcm WARNING: files are not found to be different and cannot be sorted File1: /home/freesurfer/subjects/dicom/9999/215.dcm File2: /home/freesurfer/subjects/dicom/9999/55.dcm WARNING: files are not found to be different and cannot be sorted File1: /home/freesurfer/subjects/dicom/9999/216.dcm File2: /home/freesurfer/subjects/dicom/9999/56.dcm WARNING: files are not found to be different and cannot be sorted File1: /home/freesurfer/subjects/dicom/9999/217.dcm File2: /home/freesurfer/subjects/dicom/9999/57.dcm WARNING: files are not found to be different and cannot be sorted File1: /home/freesurfer/subjects/dicom/9999/218.dcm File2: /home/freesurfer/subjects/dicom/9999/58.dcm WARNING: files are not found to be different and cannot be sorted File1: /home/freesurfer/subjects/dicom/9999/219.dcm File2: /home/freesurfer/subjects/dicom/9999/59.dcm WARNING: files are not found to be different and cannot be sorted File1: /home/freesurfer/subjects/dicom/9999/220.dcm File2: /home/freesurfer/subjects/dicom/9999/60.dcm WARNING: files are not found to be different and cannot be sorted File1: /home/freesurfer/subjects/dicom/9999/221.dcm File2: /home/freesurfer/subjects/dicom/9999/61.dcm WARNING: files are not found to be different and cannot be sorted File1: /home/freesurfer/subjects/dicom/9999/222.dcm File2: /home/freesurfer/subjects/dicom/9999/62.dcm WARNING: files are not found to be different and cannot be sorted File1: /home/freesurfer/subjects/dicom/9999/223.dcm File2: /home/freesurfer/subjects/dicom/9999/63.dcm WARNING: files are not found to be different and cannot be sorted File1: /home/freesurfer/subjects/dicom/9999/224.dcm File2: /home/freesurfer/subjects/dicom/9999/64.dcm WARNING: files are not found to be different and cannot be sorted File1: /home/freesurfer/subjects/dicom/9999/225.dcm File2: /home/freesurfer/subjects/dicom/9999/65.dcm WARNING: files are not found to be different and cannot be sorted File1: /home/freesurfer/subjects/dicom/9999/226.dcm File2: /home/freesurfer/subjects/dicom/9999/66.dcm WARNING: files are not found to be different and cannot be sorted File1: /home/freesurfer/subjects/dicom/9999/227.dcm File2: /home/freesurfer/subjects/dicom/9999/67.dcm WARNING: files are not found to be different and cannot be sorted File1: /home/freesurfer/subjects/dicom/9999/228.dcm File2: /home/freesurfer/subjects/dicom/9999/68.dcm WARNING: files are not found to be different and cannot be sorted File1: /home/freesurfer/subjects/dicom/9999/229.dcm File2: /home/freesurfer/subjects/dicom/9999/69.dcm WARNING: files are not found to be different and cannot be sorted File1: /home/freesurfer/subjects/dicom/9999/230.dcm File2: /home/freesurfer/subjects/dicom/9999/70.dcm WARNING: files are not found to be different and cannot be sorted File1: /home/freesurfer/subjects/dicom/9999/231.dcm File2: /home/freesurfer/subjects/dicom/9999/71.dcm WARNING: files are not found to be different and cannot be sorted File1: /home/freesurfer/subjects/dicom/9999/232.dcm File2: /home/freesurfer/subjects/dicom/9999/72.dcm WARNING: files are not found to be different and cannot be sorted File1: /home/freesurfer/subjects/dicom/9999/233.dcm File2: /home/freesurfer/subjects/dicom/9999/73.dcm WARNING: files are not found to be different and cannot be sorted File1: /home/freesurfer/subjects/dicom/9999/234.dcm File2: /home/freesurfer/subjects/dicom/9999/74.dcm WARNING: files are not found to be different and cannot be sorted File1: /home/freesurfer/subjects/dicom/9999/235.dcm File2: /home/freesurfer/subjects/dicom/9999/75.dcm WARNING: files are not found to be different and cannot be sorted File1: /home/freesurfer/subjects/dicom/9999/236.dcm File2: /home/freesurfer/subjects/dicom/9999/76.dcm WARNING: files are not found to be different and cannot be sorted File1: /home/freesurfer/subjects/dicom/9999/237.dcm File2: /home/freesurfer/subjects/dicom/9999/77.dcm WARNING: files are not found to be different and cannot be sorted File1: /home/freesurfer/subjects/dicom/9999/238.dcm File2: /home/freesurfer/subjects/dicom/9999/78.dcm WARNING: files are not found to be different and cannot be sorted File1: /home/freesurfer/subjects/dicom/9999/239.dcm File2: /home/freesurfer/subjects/dicom/9999/79.dcm WARNING: files are not found to be different and cannot be sorted File1: /home/freesurfer/subjects/dicom/9999/240.dcm File2: /home/freesurfer/subjects/dicom/9999/80.dcm WARNING: files are not found to be different and cannot be sorted File1: /home/freesurfer/subjects/dicom/9999/241.dcm File2: /home/freesurfer/subjects/dicom/9999/81.dcm WARNING: files are not found to be different and cannot be sorted File1: /home/freesurfer/subjects/dicom/9999/242.dcm File2: /home/freesurfer/subjects/dicom/9999/82.dcm WARNING: files are not found to be different and cannot be sorted File1: /home/freesurfer/subjects/dicom/9999/100.dcm File2: /home/freesurfer/subjects/dicom/9999/260.dcm WARNING: files are not found to be different and cannot be sorted File1: /home/freesurfer/subjects/dicom/9999/101.dcm File2: /home/freesurfer/subjects/dicom/9999/261.dcm WARNING: files are not found to be different and cannot be sorted File1: /home/freesurfer/subjects/dicom/9999/102.dcm File2: /home/freesurfer/subjects/dicom/9999/262.dcm WARNING: files are not found to be different and cannot be sorted File1: /home/freesurfer/subjects/dicom/9999/103.dcm File2: /home/freesurfer/subjects/dicom/9999/263.dcm WARNING: files are not found to be different and cannot be sorted File1: /home/freesurfer/subjects/dicom/9999/104.dcm File2: /home/freesurfer/subjects/dicom/9999/264.dcm WARNING: files are not found to be different and cannot be sorted File1: /home/freesurfer/subjects/dicom/9999/105.dcm File2: /home/freesurfer/subjects/dicom/9999/265.dcm WARNING: files are not found to be different and cannot be sorted File1: /home/freesurfer/subjects/dicom/9999/106.dcm File2: /home/freesurfer/subjects/dicom/9999/266.dcm WARNING: files are not found to be different and cannot be sorted File1: /home/freesurfer/subjects/dicom/9999/107.dcm File2: /home/freesurfer/subjects/dicom/9999/267.dcm WARNING: files are not found to be different and cannot be sorted File1: /home/freesurfer/subjects/dicom/9999/108.dcm File2: /home/freesurfer/subjects/dicom/9999/268.dcm WARNING: files are not found to be different and cannot be sorted File1: /home/freesurfer/subjects/dicom/9999/109.dcm File2: /home/freesurfer/subjects/dicom/9999/269.dcm WARNING: files are not found to be different and cannot be sorted File1: /home/freesurfer/subjects/dicom/9999/110.dcm File2: /home/freesurfer/subjects/dicom/9999/270.dcm WARNING: files are not found to be different and cannot be sorted File1: /home/freesurfer/subjects/dicom/9999/111.dcm File2: /home/freesurfer/subjects/dicom/9999/271.dcm WARNING: files are not found to be different and cannot be sorted File1: /home/freesurfer/subjects/dicom/9999/112.dcm File2: /home/freesurfer/subjects/dicom/9999/272.dcm WARNING: files are not found to be different and cannot be sorted File1: /home/freesurfer/subjects/dicom/9999/113.dcm File2: /home/freesurfer/subjects/dicom/9999/273.dcm WARNING: files are not found to be different and cannot be sorted File1: /home/freesurfer/subjects/dicom/9999/114.dcm File2: /home/freesurfer/subjects/dicom/9999/274.dcm WARNING: files are not found to be different and cannot be sorted File1: /home/freesurfer/subjects/dicom/9999/115.dcm File2: /home/freesurfer/subjects/dicom/9999/275.dcm WARNING: files are not found to be different and cannot be sorted File1: /home/freesurfer/subjects/dicom/9999/116.dcm File2: /home/freesurfer/subjects/dicom/9999/276.dcm WARNING: files are not found to be different and cannot be sorted File1: /home/freesurfer/subjects/dicom/9999/117.dcm File2: /home/freesurfer/subjects/dicom/9999/277.dcm WARNING: files are not found to be different and cannot be sorted File1: /home/freesurfer/subjects/dicom/9999/118.dcm File2: /home/freesurfer/subjects/dicom/9999/278.dcm WARNING: files are not found to be different and cannot be sorted File1: /home/freesurfer/subjects/dicom/9999/119.dcm File2: /home/freesurfer/subjects/dicom/9999/279.dcm WARNING: files are not found to be different and cannot be sorted File1: /home/freesurfer/subjects/dicom/9999/120.dcm File2: /home/freesurfer/subjects/dicom/9999/280.dcm WARNING: files are not found to be different and cannot be sorted File1: /home/freesurfer/subjects/dicom/9999/121.dcm File2: /home/freesurfer/subjects/dicom/9999/281.dcm WARNING: files are not found to be different and cannot be sorted File1: /home/freesurfer/subjects/dicom/9999/122.dcm File2: /home/freesurfer/subjects/dicom/9999/282.dcm WARNING: files are not found to be different and cannot be sorted File1: /home/freesurfer/subjects/dicom/9999/123.dcm File2: /home/freesurfer/subjects/dicom/9999/283.dcm WARNING: files are not found to be different and cannot be sorted File1: /home/freesurfer/subjects/dicom/9999/124.dcm File2: /home/freesurfer/subjects/dicom/9999/284.dcm WARNING: files are not found to be different and cannot be sorted File1: /home/freesurfer/subjects/dicom/9999/125.dcm File2: /home/freesurfer/subjects/dicom/9999/285.dcm WARNING: files are not found to be different and cannot be sorted File1: /home/freesurfer/subjects/dicom/9999/126.dcm File2: /home/freesurfer/subjects/dicom/9999/286.dcm WARNING: files are not found to be different and cannot be sorted File1: /home/freesurfer/subjects/dicom/9999/127.dcm File2: /home/freesurfer/subjects/dicom/9999/287.dcm WARNING: files are not found to be different and cannot be sorted File1: /home/freesurfer/subjects/dicom/9999/128.dcm File2: /home/freesurfer/subjects/dicom/9999/288.dcm WARNING: files are not found to be different and cannot be sorted File1: /home/freesurfer/subjects/dicom/9999/129.dcm File2: /home/freesurfer/subjects/dicom/9999/289.dcm WARNING: files are not found to be different and cannot be sorted File1: /home/freesurfer/subjects/dicom/9999/130.dcm File2: /home/freesurfer/subjects/dicom/9999/290.dcm WARNING: files are not found to be different and cannot be sorted File1: /home/freesurfer/subjects/dicom/9999/131.dcm File2: /home/freesurfer/subjects/dicom/9999/291.dcm WARNING: files are not found to be different and cannot be sorted File1: /home/freesurfer/subjects/dicom/9999/132.dcm File2: /home/freesurfer/subjects/dicom/9999/292.dcm WARNING: files are not found to be different and cannot be sorted File1: /home/freesurfer/subjects/dicom/9999/133.dcm File2: /home/freesurfer/subjects/dicom/9999/293.dcm WARNING: files are not found to be different and cannot be sorted File1: /home/freesurfer/subjects/dicom/9999/134.dcm File2: /home/freesurfer/subjects/dicom/9999/294.dcm WARNING: files are not found to be different and cannot be sorted File1: /home/freesurfer/subjects/dicom/9999/135.dcm File2: /home/freesurfer/subjects/dicom/9999/295.dcm WARNING: files are not found to be different and cannot be sorted File1: /home/freesurfer/subjects/dicom/9999/136.dcm File2: /home/freesurfer/subjects/dicom/9999/296.dcm WARNING: files are not found to be different and cannot be sorted File1: /home/freesurfer/subjects/dicom/9999/137.dcm File2: /home/freesurfer/subjects/dicom/9999/297.dcm WARNING: files are not found to be different and cannot be sorted File1: /home/freesurfer/subjects/dicom/9999/138.dcm File2: /home/freesurfer/subjects/dicom/9999/298.dcm WARNING: files are not found to be different and cannot be sorted File1: /home/freesurfer/subjects/dicom/9999/139.dcm File2: /home/freesurfer/subjects/dicom/9999/299.dcm WARNING: files are not found to be different and cannot be sorted File1: /home/freesurfer/subjects/dicom/9999/140.dcm File2: /home/freesurfer/subjects/dicom/9999/300.dcm WARNING: files are not found to be different and cannot be sorted File1: /home/freesurfer/subjects/dicom/9999/141.dcm File2: /home/freesurfer/subjects/dicom/9999/301.dcm WARNING: files are not found to be different and cannot be sorted File1: /home/freesurfer/subjects/dicom/9999/142.dcm File2: /home/freesurfer/subjects/dicom/9999/302.dcm WARNING: files are not found to be different and cannot be sorted File1: /home/freesurfer/subjects/dicom/9999/143.dcm File2: /home/freesurfer/subjects/dicom/9999/303.dcm WARNING: files are not found to be different and cannot be sorted File1: /home/freesurfer/subjects/dicom/9999/144.dcm File2: /home/freesurfer/subjects/dicom/9999/304.dcm WARNING: files are not found to be different and cannot be sorted File1: /home/freesurfer/subjects/dicom/9999/145.dcm File2: /home/freesurfer/subjects/dicom/9999/305.dcm WARNING: files are not found to be different and cannot be sorted File1: /home/freesurfer/subjects/dicom/9999/146.dcm File2: /home/freesurfer/subjects/dicom/9999/306.dcm WARNING: files are not found to be different and cannot be sorted File1: /home/freesurfer/subjects/dicom/9999/147.dcm File2: /home/freesurfer/subjects/dicom/9999/307.dcm WARNING: files are not found to be different and cannot be sorted File1: /home/freesurfer/subjects/dicom/9999/148.dcm File2: /home/freesurfer/subjects/dicom/9999/308.dcm WARNING: files are not found to be different and cannot be sorted File1: /home/freesurfer/subjects/dicom/9999/149.dcm File2: /home/freesurfer/subjects/dicom/9999/309.dcm WARNING: files are not found to be different and cannot be sorted File1: /home/freesurfer/subjects/dicom/9999/150.dcm File2: /home/freesurfer/subjects/dicom/9999/310.dcm WARNING: files are not found to be different and cannot be sorted File1: /home/freesurfer/subjects/dicom/9999/151.dcm File2: /home/freesurfer/subjects/dicom/9999/311.dcm WARNING: files are not found to be different and cannot be sorted File1: /home/freesurfer/subjects/dicom/9999/152.dcm File2: /home/freesurfer/subjects/dicom/9999/312.dcm WARNING: files are not found to be different and cannot be sorted File1: /home/freesurfer/subjects/dicom/9999/153.dcm File2: /home/freesurfer/subjects/dicom/9999/313.dcm WARNING: files are not found to be different and cannot be sorted File1: /home/freesurfer/subjects/dicom/9999/154.dcm File2: /home/freesurfer/subjects/dicom/9999/314.dcm WARNING: files are not found to be different and cannot be sorted File1: /home/freesurfer/subjects/dicom/9999/155.dcm File2: /home/freesurfer/subjects/dicom/9999/315.dcm WARNING: files are not found to be different and cannot be sorted File1: /home/freesurfer/subjects/dicom/9999/156.dcm File2: /home/freesurfer/subjects/dicom/9999/316.dcm WARNING: files are not found to be different and cannot be sorted File1: /home/freesurfer/subjects/dicom/9999/157.dcm File2: /home/freesurfer/subjects/dicom/9999/317.dcm WARNING: files are not found to be different and cannot be sorted File1: /home/freesurfer/subjects/dicom/9999/158.dcm File2: /home/freesurfer/subjects/dicom/9999/318.dcm WARNING: files are not found to be different and cannot be sorted File1: /home/freesurfer/subjects/dicom/9999/159.dcm File2: /home/freesurfer/subjects/dicom/9999/319.dcm WARNING: files are not found to be different and cannot be sorted File1: /home/freesurfer/subjects/dicom/9999/160.dcm File2: /home/freesurfer/subjects/dicom/9999/320.dcm INFO: (192 192 320), nframes = 1, ismosaic=0 PE Dir ROW ROW AutoAlign matrix detected AutoAlign Matrix --------------------- 1.000 0.000 0.000 0.000; 0.000 1.000 0.000 0.000; 0.000 0.000 1.000 0.000; 0.000 0.000 0.000 1.000;

Volume information for 1.dcm type: siemens_dicom dimensions: 192 x 192 x 320 voxel sizes: 1.2500, 1.2500, 1.2000 type: SHORT (4) fov: 192.000 dof: 0 xstart: -96.0, xend: 96.0 ystart: -96.0, yend: 96.0 zstart: -160.0, zend: 160.0 TR: 2400.00 msec, TE: 3.61 msec, TI: 1000.00 msec, flip angle: 8.00 degrees nframes: 1 PhEncDir: ROW ras xform present xform info: x_r = -0.1052, y_r = 0.0617, z_r = -0.9925, c_r = -87.9477 : x_a = -0.9944, y_a = -0.0065, z_a = 0.1050, c_a = 32.3012 : x_s = -0.0000, y_s = -0.9981, z_s = -0.0620, c_s = -29.8398 Orientation : PIL Primary Slice Direction: sagittal

voxel to ras transform: -0.1315 0.0771 -1.1910 107.8465 -1.2431 -0.0082 0.1260 132.2527 -0.0000 -1.2476 -0.0744 101.8353 0.0000 0.0000 0.0000 1.0000

voxel-to-ras determinant -1.875

ras to voxel transform: -0.0842 -0.7956 -0.0000 114.2937 0.0493 -0.0052 -0.7985 76.6815 -0.8271 0.0875 -0.0517 82.8883 0.0000 0.0000 0.0000 1.0000

On 07/05/2014 03:46 PM, Bruce Fischl wrote:

Hi Knut

can you run mri_info on that dicom file?

thanks Bruce On Sat, 5 Jul 2014, Knut J Bjuland wrote:

...

Cut-and-paste the following info into your FreeSurfer problem report:

FREESURFER_HOME: /usr/local/freesurfer

Build stamp: freesurfer-Linux-centos6_x86_64-stable-pub-v5.3.0

Debian version: jessie/sid

Kernel info: Linux 3.13.0-30-generic x86_64

---

Please include the following additional information in your report:

1. subject name
2. the entire command-line executed
3. the error message generated
4. optionally include the subject's /script/recon-all.log

See also: http://surfer.nmr.mgh.harvard.edu/fswiki/BugReporting

recon-all -i dicom/9999/1.dcm -s 9999

cd 9999/mri/orig and mri_convert -ot mgz /pat/dicom/9999/1.dcm 001.mgz with the same results

knut j

On 07/05/2014 12:36 PM, Knut J Bjuland wrote:

...

Dear FreeSurfers,

I have imported several dicom files with recon-all -i -subjid id. All files were imported correctly, apart from one subjects. When I try to convert it direcelty with mri_convert -ot mgz dicom/9999/1.dcm -s 9999

I get this error message.

WARNING: files are not found to be different and cannot be sorted File1: ../../../../dicom/9999/162.dcm File2: ../../../../dicom/9999/2.dcm

When I process the subject with recon-all -s 9999 -all. I got this message.

WARNING ==================++++++++++++++++++++++++======================================= The physical sizes are (240.00 mm, 240.00 mm, 384.00 mm), which cannot fit in 256^3 mm^3 volumes. The resulting volume will have 384 slices. If you find problems, please let us know (freesurfer@nmr.mgh.harvard.edu)

Can you please advise me how to import the dicom files? Should I convert them to nifti. Will this affect the end results compared to the other subjects that were imported correctly?

Knut J

---

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The information in this e-mail is intended only for the person to whom it is addressed. If you believe this e-mail was sent to you in error and the e-mail contains patient information, please contact the Partners Compliance HelpLine at http://www.partners.org/complianceline . If the e-mail was sent to you in error but does not contain patient information, please contact the sender and properly dispose of the e-mail.

---

Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer

---

Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer

Hi Bruce

That right. After the dicom were converted to nii.gz it imported and processed into recon-all without any problem. Please see my other mail with mri_info.

mri_convert /home/freesurfer/subjects/9999/mri/rawavg.mgz /home/freesurfer/subjects/9999/mri/orig.mgz --conform $Id: mri_convert.c,v 1.179.2.7 2012/09/05 21:55:16 mreuter Exp $ reading from /home/freesurfer/subjects/9999/mri/rawavg.mgz... TR=2400.00, TE=0.00, TI=0.00, flip angle=0.00 i_ras = (-0.10523, -0.994448, 0) j_ras = (-0.0616664, 0.00652535, 0.998075) k_ras = (0.992534, -0.105027, 0.0620106) Original Data has (1.25, 1.25, 1.2) mm size and (192, 192, 160) voxels. Data is conformed to 1 mm size and 256 voxels for all directions changing data type from float to uchar (noscale = 0)... MRIchangeType: Building histogram Reslicing using trilinear interpolation

cheers Knut J

On 07/05/2014 03:46 PM, Bruce Fischl wrote:

Hi Knut

is the FOV really 384mm?? That's awfully big and seems more likely to be an error in the dicoms than real.

cheers Bruce On Sat, 5 Jul 2014, Knut J Bjuland wrote:

...

Dear FreeSurfers,

I have imported several dicom files with recon-all -i -subjid id. All files were imported correctly, apart from one subjects. When I try to convert it direcelty with mri_convert -ot mgz dicom/9999/1.dcm -s 9999

I get this error message.

WARNING: files are not found to be different and cannot be sorted File1: ../../../../dicom/9999/162.dcm File2: ../../../../dicom/9999/2.dcm

When I process the subject with recon-all -s 9999 -all. I got this message.

WARNING ==================++++++++++++++++++++++++======================================= The physical sizes are (240.00 mm, 240.00 mm, 384.00 mm), which cannot fit in 256^3 mm^3 volumes. The resulting volume will have 384 slices. If you find problems, please let us know (freesurfer@nmr.mgh.harvard.edu)

Can you please advise me how to import the dicom files? Should I convert them to nifti. Will this affect the end results compared to the other subjects that were imported correctly?

Knut J

---

Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer

---

Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer

The information in this e-mail is intended only for the person to whom it is addressed. If you believe this e-mail was sent to you in error and the e-mail contains patient information, please contact the Partners Compliance HelpLine at http://www.partners.org/complianceline . If the e-mail was sent to you in error but does not contain patient information, please contact the sender and properly dispose of the e-mail.