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zhilizheng / SBayesRC

GNU General Public License v3.0
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Core dumped, final step #7

Closed vwarrier closed 1 year ago

vwarrier commented 1 year ago

Hello,

Thank you for this interesting method. I've been trying this using both the executable on the GCTB webpage and the code over here. I'm able to run the programme up until imputation, but have been running into issues after that neither using the code nor the executable. I can run SBayesR, but not SBayesRC.

I was wondering if you could please let me know what the potential issue is? The log is attached. depression_impute_sbrc.log

Thanks, Varun

zhilizheng commented 1 year ago

Hi @vwarrier

Thanks for the report. It looks like some files in the LD folder have problem (the error means: read the number of markers error).

Could you send me the output of:
ls -ltr ~/GCTA/SBayesRC/ukbEUR_Imputed/ md5sum ~/GCTA/SBayesRC/ukbEUR_Imputed/block591.eigen.bin md5sum ~/GCTA/SBayesRC/ukbEUR_Imputed/block1.eigen.bin md5sum ~/GCTA/SBayesRC/ukbEUR_Imputed/snp.info md5sum ~/GCTA/SBayesRC/ukbEUR_Imputed/ldm.info

Thanks.

Regards, Zhili

vwarrier commented 1 year ago

Dear Zhili,

Thanks! Please find the information you requested below and attached.

ls -ltr ~/GCTA/SBayesRC/ukbEUR_Imputed/? - attached

md5sum ~/GCTA/SBayesRC/ukbEUR_Imputed/block591.eigen.bin: b1abcf77a9f37223e096d97c2eeda8dd md5sum ~/GCTA/SBayesRC/ukbEUR_Imputed/block1.eigen.bin: 8dc6b752c66ccb1e81488419b01ffb79 md5sum ~/GCTA/SBayesRC/ukbEUR_Imputed/snp.info: 6b31ce56797d2b65280b7b0733b93f30 md5sum ~/GCTA/SBayesRC/ukbEUR_Imputed/ldm.info : be171ed0a7adf6169288d7a362d6bbd9

Thank you, Varun

I do not expect a response outside your office hours

From: Zhili @.***> Sent: 25 May 2023 15:25 To: zhilizheng/SBayesRC Cc: Varun Warrier; Mention Subject: Re: [zhilizheng/SBayesRC] Core dumped, final step (Issue #7)

Hi @vwarrierhttps://github.com/vwarrier

Thanks for the report. It looks like some files in the LD folder have problem (the error means: read the number of markers error).

Could you send me the output of: ls -ltr ~/GCTA/SBayesRC/ukbEUR_Imputed/ md5sum ~/GCTA/SBayesRC/ukbEUR_Imputed/block591.eigen.bin md5sum ~/GCTA/SBayesRC/ukbEUR_Imputed/block1.eigen.bin md5sum ~/GCTA/SBayesRC/ukbEUR_Imputed/snp.info md5sum ~/GCTA/SBayesRC/ukbEUR_Imputed/ldm.info

Thanks.

Regards, Zhili

- Reply to this email directly, view it on GitHubhttps://github.com/zhilizheng/SBayesRC/issues/7#issuecomment-1563004246, or unsubscribehttps://github.com/notifications/unsubscribe-auth/ACTZYBDOHXURLTOZQ6XPXFTXH5TT5ANCNFSM6AAAAAAYORTL3A. You are receiving this because you were mentioned.Message ID: @.***>

total 68199184 -rw-r--r-- 1 vw260 arc 398736294 Apr 7 19:07 snp.info -rw-r--r-- 1 vw260 arc 29067 Apr 7 19:07 ldm.info -rw-r--r-- 1 vw260 arc 32031964 Apr 7 19:07 block7.eigen.bin -rw-r--r-- 1 vw260 arc 98455792 Apr 7 19:07 block6.eigen.bin -rw-r--r-- 1 vw260 arc 46502208 Apr 7 19:07 block5.eigen.bin -rw-r--r-- 1 vw260 arc 35840464 Apr 7 19:07 block4.eigen.bin -rw-r--r-- 1 vw260 arc 74370256 Apr 7 19:07 block3.eigen.bin -rw-r--r-- 1 vw260 arc 69780176 Apr 7 19:07 block2.eigen.bin -rw-r--r-- 1 vw260 arc 60921340 Apr 7 19:07 block1.eigen.bin -rw-r--r-- 1 vw260 arc 175833744 Apr 7 19:07 block9.eigen.bin -rw-r--r-- 1 vw260 arc 144333016 Apr 7 19:07 block8.eigen.bin -rw-r--r-- 1 vw260 arc 37048240 Apr 7 19:07 block11.eigen.bin -rw-r--r-- 1 vw260 arc 92845312 Apr 7 19:07 block10.eigen.bin -rw-r--r-- 1 vw260 arc 86841176 Apr 7 19:07 block18.eigen.bin -rw-r--r-- 1 vw260 arc 60384676 Apr 7 19:07 block17.eigen.bin -rw-r--r-- 1 vw260 arc 61589804 Apr 7 19:07 block16.eigen.bin -rw-r--r-- 1 vw260 arc 49297828 Apr 7 19:07 block15.eigen.bin -rw-r--r-- 1 vw260 arc 53260256 Apr 7 19:07 block14.eigen.bin -rw-r--r-- 1 vw260 arc 124411696 Apr 7 19:07 block13.eigen.bin -rw-r--r-- 1 vw260 arc 152723956 Apr 7 19:07 block12.eigen.bin -rw-r--r-- 1 vw260 arc 58575988 Apr 7 19:08 block22.eigen.bin -rw-r--r-- 1 vw260 arc 83412528 Apr 7 19:08 block21.eigen.bin -rw-r--r-- 1 vw260 arc 93901824 Apr 7 19:08 block20.eigen.bin -rw-r--r-- 1 vw260 arc 207122008 Apr 7 19:08 block19.eigen.bin -rw-r--r-- 1 vw260 arc 57315856 Apr 7 19:08 block26.eigen.bin -rw-r--r-- 1 vw260 arc 218587784 Apr 7 19:08 block25.eigen.bin -rw-r--r-- 1 vw260 arc 110101368 Apr 7 19:08 block24.eigen.bin -rw-r--r-- 1 vw260 arc 133964704 Apr 7 19:08 block23.eigen.bin -rw-r--r-- 1 vw260 arc 98717432 Apr 7 19:08 block31.eigen.bin -rw-r--r-- 1 vw260 arc 160834768 Apr 7 19:08 block30.eigen.bin -rw-r--r-- 1 vw260 arc 119056144 Apr 7 19:08 block29.eigen.bin -rw-r--r-- 1 vw260 arc 192163176 Apr 7 19:08 block28.eigen.bin -rw-r--r-- 1 vw260 arc 131563616 Apr 7 19:08 block27.eigen.bin -rw-r--r-- 1 vw260 arc 130389604 Apr 7 19:08 block34.eigen.bin -rw-r--r-- 1 vw260 arc 118559716 Apr 7 19:08 block33.eigen.bin -rw-r--r-- 1 vw260 arc 222495840 Apr 7 19:08 block32.eigen.bin -rw-r--r-- 1 vw260 arc 81837880 Apr 7 19:08 block39.eigen.bin -rw-r--r-- 1 vw260 arc 55185872 Apr 7 19:08 block37.eigen.bin -rw-r--r-- 1 vw260 arc 116610352 Apr 7 19:08 block36.eigen.bin -rw-r--r-- 1 vw260 arc 192361156 Apr 7 19:08 block35.eigen.bin -rw-r--r-- 1 vw260 arc 47621128 Apr 7 19:08 block44.eigen.bin -rw-r--r-- 1 vw260 arc 59347936 Apr 7 19:08 block43.eigen.bin -rw-r--r-- 1 vw260 arc 151131088 Apr 7 19:08 block42.eigen.bin -rw-r--r-- 1 vw260 arc 158933356 Apr 7 19:08 block41.eigen.bin -rw-r--r-- 1 vw260 arc 96037936 Apr 7 19:08 block40.eigen.bin -rw-r--r-- 1 vw260 arc 163559280 Apr 7 19:08 block38.eigen.bin -rw-r--r-- 1 vw260 arc 81646224 Apr 7 19:08 block52.eigen.bin -rw-r--r-- 1 vw260 arc 65756856 Apr 7 19:08 block51.eigen.bin -rw-r--r-- 1 vw260 arc 93876848 Apr 7 19:08 block49.eigen.bin -rw-r--r-- 1 vw260 arc 78169936 Apr 7 19:08 block48.eigen.bin -rw-r--r-- 1 vw260 arc 24044440 Apr 7 19:08 block47.eigen.bin -rw-r--r-- 1 vw260 arc 76050000 Apr 7 19:08 block46.eigen.bin -rw-r--r-- 1 vw260 arc 24707336 Apr 7 19:08 block45.eigen.bin -rw-r--r-- 1 vw260 arc 47921428 Apr 7 19:08 block58.eigen.bin -rw-r--r-- 1 vw260 arc 72222896 Apr 7 19:08 block56.eigen.bin -rw-r--r-- 1 vw260 arc 68697136 Apr 7 19:08 block55.eigen.bin -rw-r--r-- 1 vw260 arc 89554544 Apr 7 19:08 block54.eigen.bin -rw-r--r-- 1 vw260 arc 51404992 Apr 7 19:08 block53.eigen.bin -rw-r--r-- 1 vw260 arc 136345156 Apr 7 19:08 block50.eigen.bin -rw-r--r-- 1 vw260 arc 97544624 Apr 7 19:08 block62.eigen.bin -rw-r--r-- 1 vw260 arc 131512696 Apr 7 19:08 block61.eigen.bin -rw-r--r-- 1 vw260 arc 119879744 Apr 7 19:08 block60.eigen.bin -rw-r--r-- 1 vw260 arc 148981664 Apr 7 19:08 block59.eigen.bin -rw-r--r-- 1 vw260 arc 123304856 Apr 7 19:08 block57.eigen.bin -rw-r--r-- 1 vw260 arc 65763916 Apr 7 19:08 block66.eigen.bin -rw-r--r-- 1 vw260 arc 206122504 Apr 7 19:08 block64.eigen.bin -rw-r--r-- 1 vw260 arc 186259408 Apr 7 19:08 block63.eigen.bin -rw-r--r-- 1 vw260 arc 132046348 Apr 7 19:08 block68.eigen.bin -rw-r--r-- 1 vw260 arc 170073880 Apr 7 19:08 block67.eigen.bin -rw-r--r-- 1 vw260 arc 247443040 Apr 7 19:08 block65.eigen.bin -rw-r--r-- 1 vw260 arc 182434840 Apr 7 19:08 block72.eigen.bin -rw-r--r-- 1 vw260 arc 64772372 Apr 7 19:08 block71.eigen.bin -rw-r--r-- 1 vw260 arc 251580532 Apr 7 19:08 block70.eigen.bin -rw-r--r-- 1 vw260 arc 189307816 Apr 7 19:08 block69.eigen.bin -rw-r--r-- 1 vw260 arc 116637456 Apr 7 19:08 block75.eigen.bin -rw-r--r-- 1 vw260 arc 181351216 Apr 7 19:08 block74.eigen.bin -rw-r--r-- 1 vw260 arc 191370580 Apr 7 19:08 block73.eigen.bin -rw-r--r-- 1 vw260 arc 152976528 Apr 7 19:08 block78.eigen.bin -rw-r--r-- 1 vw260 arc 113181688 Apr 7 19:08 block77.eigen.bin -rw-r--r-- 1 vw260 arc 142442512 Apr 7 19:08 block76.eigen.bin -rw-r--r-- 1 vw260 arc 108212408 Apr 7 19:08 block82.eigen.bin -rw-r--r-- 1 vw260 arc 91552336 Apr 7 19:08 block81.eigen.bin -rw-r--r-- 1 vw260 arc 188452840 Apr 7 19:08 block80.eigen.bin -rw-r--r-- 1 vw260 arc 117452956 Apr 7 19:08 block79.eigen.bin -rw-r--r-- 1 vw260 arc 88838548 Apr 7 19:08 block87.eigen.bin -rw-r--r-- 1 vw260 arc 158227056 Apr 7 19:08 block86.eigen.bin -rw-r--r-- 1 vw260 arc 107177128 Apr 7 19:08 block85.eigen.bin -rw-r--r-- 1 vw260 arc 141257368 Apr 7 19:08 block83.eigen.bin -rw-r--r-- 1 vw260 arc 83681836 Apr 7 19:08 block90.eigen.bin -rw-r--r-- 1 vw260 arc 55484544 Apr 7 19:08 block89.eigen.bin -rw-r--r-- 1 vw260 arc 142755076 Apr 7 19:08 block88.eigen.bin -rw-r--r-- 1 vw260 arc 320296096 Apr 7 19:08 block84.eigen.bin -rw-r--r-- 1 vw260 arc 53578016 Apr 7 19:08 block94.eigen.bin -rw-r--r-- 1 vw260 arc 67038064 Apr 7 19:08 block93.eigen.bin -rw-r--r-- 1 vw260 arc 100681584 Apr 7 19:08 block92.eigen.bin -rw-r--r-- 1 vw260 arc 146845724 Apr 7 19:08 block91.eigen.bin -rw-r--r-- 1 vw260 arc 55443660 Apr 7 19:08 block99.eigen.bin -rw-r--r-- 1 vw260 arc 69407752 Apr 7 19:08 block98.eigen.bin -rw-r--r-- 1 vw260 arc 134509840 Apr 7 19:08 block97.eigen.bin -rw-r--r-- 1 vw260 arc 131040904 Apr 7 19:08 block96.eigen.bin -rw-r--r-- 1 vw260 arc 274681748 Apr 7 19:08 block95.eigen.bin -rw-r--r-- 1 vw260 arc 62763656 Apr 7 19:08 block104.eigen.bin -rw-r--r-- 1 vw260 arc 106399000 Apr 7 19:08 block103.eigen.bin -rw-r--r-- 1 vw260 arc 148820336 Apr 7 19:08 block102.eigen.bin -rw-r--r-- 1 vw260 arc 81748696 Apr 7 19:08 block101.eigen.bin -rw-r--r-- 1 vw260 arc 108290548 Apr 7 19:08 block100.eigen.bin -rw-r--r-- 1 vw260 arc 86835004 Apr 7 19:08 block109.eigen.bin -rw-r--r-- 1 vw260 arc 100754776 Apr 7 19:08 block108.eigen.bin -rw-r--r-- 1 vw260 arc 236043776 Apr 7 19:08 block107.eigen.bin -rw-r--r-- 1 vw260 arc 132828356 Apr 7 19:08 block106.eigen.bin -rw-r--r-- 1 vw260 arc 114276440 Apr 7 19:08 block105.eigen.bin -rw-r--r-- 1 vw260 arc 120041456 Apr 7 19:08 block113.eigen.bin -rw-r--r-- 1 vw260 arc 111274408 Apr 7 19:08 block112.eigen.bin -rw-r--r-- 1 vw260 arc 154982716 Apr 7 19:08 block111.eigen.bin -rw-r--r-- 1 vw260 arc 108243776 Apr 7 19:08 block110.eigen.bin -rw-r--r-- 1 vw260 arc 73878736 Apr 7 19:08 block117.eigen.bin -rw-r--r-- 1 vw260 arc 131888248 Apr 7 19:08 block116.eigen.bin -rw-r--r-- 1 vw260 arc 97819152 Apr 7 19:08 block119.eigen.bin -rw-r--r-- 1 vw260 arc 111099088 Apr 7 19:08 block118.eigen.bin -rw-r--r-- 1 vw260 arc 287955416 Apr 7 19:08 block115.eigen.bin -rw-r--r-- 1 vw260 arc 67565136 Apr 7 19:08 block121.eigen.bin -rw-r--r-- 1 vw260 arc 123625000 Apr 7 19:08 block120.eigen.bin -rw-r--r-- 1 vw260 arc 699397924 Apr 7 19:08 block114.eigen.bin -rw-r--r-- 1 vw260 arc 134178480 Apr 7 19:08 block125.eigen.bin -rw-r--r-- 1 vw260 arc 88000816 Apr 7 19:08 block124.eigen.bin -rw-r--r-- 1 vw260 arc 176684416 Apr 7 19:08 block123.eigen.bin -rw-r--r-- 1 vw260 arc 94148752 Apr 7 19:08 block129.eigen.bin -rw-r--r-- 1 vw260 arc 49978736 Apr 7 19:08 block128.eigen.bin -rw-r--r-- 1 vw260 arc 75982636 Apr 7 19:08 block127.eigen.bin -rw-r--r-- 1 vw260 arc 212811340 Apr 7 19:08 block122.eigen.bin -rw-r--r-- 1 vw260 arc 62571424 Apr 7 19:08 block135.eigen.bin -rw-r--r-- 1 vw260 arc 66056692 Apr 7 19:08 block134.eigen.bin -rw-r--r-- 1 vw260 arc 98643456 Apr 7 19:08 block133.eigen.bin -rw-r--r-- 1 vw260 arc 27286592 Apr 7 19:08 block132.eigen.bin -rw-r--r-- 1 vw260 arc 68425856 Apr 7 19:08 block131.eigen.bin -rw-r--r-- 1 vw260 arc 66703128 Apr 7 19:08 block130.eigen.bin -rw-r--r-- 1 vw260 arc 248264736 Apr 7 19:08 block126.eigen.bin -rw-r--r-- 1 vw260 arc 68384968 Apr 7 19:08 block140.eigen.bin -rw-r--r-- 1 vw260 arc 42152144 Apr 7 19:08 block138.eigen.bin -rw-r--r-- 1 vw260 arc 72033616 Apr 7 19:08 block137.eigen.bin -rw-r--r-- 1 vw260 arc 153198100 Apr 7 19:08 block136.eigen.bin -rw-r--r-- 1 vw260 arc 125885116 Apr 7 19:08 block143.eigen.bin -rw-r--r-- 1 vw260 arc 65770112 Apr 7 19:08 block142.eigen.bin -rw-r--r-- 1 vw260 arc 227017312 Apr 7 19:08 block141.eigen.bin -rw-r--r-- 1 vw260 arc 239394608 Apr 7 19:08 block139.eigen.bin -rw-r--r-- 1 vw260 arc 85108116 Apr 7 19:08 block147.eigen.bin -rw-r--r-- 1 vw260 arc 176638016 Apr 7 19:08 block145.eigen.bin -rw-r--r-- 1 vw260 arc 133742416 Apr 7 19:08 block144.eigen.bin -rw-r--r-- 1 vw260 arc 89015912 Apr 7 19:08 block150.eigen.bin -rw-r--r-- 1 vw260 arc 219375376 Apr 7 19:08 block149.eigen.bin -rw-r--r-- 1 vw260 arc 267340636 Apr 7 19:08 block148.eigen.bin -rw-r--r-- 1 vw260 arc 307792512 Apr 7 19:08 block146.eigen.bin -rw-r--r-- 1 vw260 arc 136883464 Apr 7 19:08 block153.eigen.bin -rw-r--r-- 1 vw260 arc 112708316 Apr 7 19:08 block152.eigen.bin -rw-r--r-- 1 vw260 arc 136137568 Apr 7 19:08 block151.eigen.bin -rw-r--r-- 1 vw260 arc 79090392 Apr 7 19:08 block156.eigen.bin -rw-r--r-- 1 vw260 arc 222305176 Apr 7 19:08 block155.eigen.bin -rw-r--r-- 1 vw260 arc 195547768 Apr 7 19:08 block154.eigen.bin -rw-r--r-- 1 vw260 arc 118085776 Apr 7 19:08 block160.eigen.bin -rw-r--r-- 1 vw260 arc 160681040 Apr 7 19:08 block158.eigen.bin -rw-r--r-- 1 vw260 arc 274292584 Apr 7 19:08 block157.eigen.bin -rw-r--r-- 1 vw260 arc 75477568 Apr 7 19:08 block163.eigen.bin -rw-r--r-- 1 vw260 arc 82537540 Apr 7 19:08 block162.eigen.bin -rw-r--r-- 1 vw260 arc 158070016 Apr 7 19:08 block161.eigen.bin -rw-r--r-- 1 vw260 arc 250712548 Apr 7 19:08 block159.eigen.bin -rw-r--r-- 1 vw260 arc 93745712 Apr 7 19:08 block168.eigen.bin -rw-r--r-- 1 vw260 arc 40454416 Apr 7 19:08 block167.eigen.bin -rw-r--r-- 1 vw260 arc 217513696 Apr 7 19:08 block166.eigen.bin -rw-r--r-- 1 vw260 arc 88836064 Apr 7 19:08 block165.eigen.bin -rw-r--r-- 1 vw260 arc 255190672 Apr 7 19:08 block164.eigen.bin -rw-r--r-- 1 vw260 arc 64696168 Apr 7 19:08 block173.eigen.bin -rw-r--r-- 1 vw260 arc 144130016 Apr 7 19:08 block172.eigen.bin -rw-r--r-- 1 vw260 arc 168825904 Apr 7 19:08 block171.eigen.bin -rw-r--r-- 1 vw260 arc 48685432 Apr 7 19:08 block170.eigen.bin -rw-r--r-- 1 vw260 arc 103832472 Apr 7 19:08 block169.eigen.bin -rw-r--r-- 1 vw260 arc 113531596 Apr 7 19:08 block177.eigen.bin -rw-r--r-- 1 vw260 arc 66883728 Apr 7 19:08 block176.eigen.bin -rw-r--r-- 1 vw260 arc 83928376 Apr 7 19:08 block175.eigen.bin -rw-r--r-- 1 vw260 arc 110202568 Apr 7 19:08 block174.eigen.bin -rw-r--r-- 1 vw260 arc 63130416 Apr 7 19:08 block183.eigen.bin -rw-r--r-- 1 vw260 arc 124343560 Apr 7 19:08 block181.eigen.bin -rw-r--r-- 1 vw260 arc 43270684 Apr 7 19:08 block180.eigen.bin -rw-r--r-- 1 vw260 arc 253215272 Apr 7 19:08 block179.eigen.bin -rw-r--r-- 1 vw260 arc 104239888 Apr 7 19:08 block178.eigen.bin -rw-r--r-- 1 vw260 arc 80917336 Apr 7 19:08 block186.eigen.bin -rw-r--r-- 1 vw260 arc 73667056 Apr 7 19:08 block185.eigen.bin -rw-r--r-- 1 vw260 arc 303582904 Apr 7 19:08 block182.eigen.bin -rw-r--r-- 1 vw260 arc 95967664 Apr 7 19:08 block187.eigen.bin -rw-r--r-- 1 vw260 arc 289572208 Apr 7 19:08 block184.eigen.bin -rw-r--r-- 1 vw260 arc 152945512 Apr 7 19:08 block192.eigen.bin -rw-r--r-- 1 vw260 arc 174740992 Apr 7 19:08 block191.eigen.bin -rw-r--r-- 1 vw260 arc 255448400 Apr 7 19:08 block190.eigen.bin -rw-r--r-- 1 vw260 arc 192930512 Apr 7 19:08 block189.eigen.bin -rw-r--r-- 1 vw260 arc 111947056 Apr 7 19:08 block188.eigen.bin -rw-r--r-- 1 vw260 arc 170592820 Apr 7 19:08 block194.eigen.bin -rw-r--r-- 1 vw260 arc 142792464 Apr 7 19:08 block193.eigen.bin -rw-r--r-- 1 vw260 arc 90850568 Apr 7 19:08 block198.eigen.bin -rw-r--r-- 1 vw260 arc 130995944 Apr 7 19:08 block197.eigen.bin -rw-r--r-- 1 vw260 arc 226979936 Apr 7 19:08 block196.eigen.bin -rw-r--r-- 1 vw260 arc 250951696 Apr 7 19:08 block195.eigen.bin -rw-r--r-- 1 vw260 arc 75830056 Apr 7 19:08 block203.eigen.bin -rw-r--r-- 1 vw260 arc 55733072 Apr 7 19:08 block202.eigen.bin -rw-r--r-- 1 vw260 arc 101918800 Apr 7 19:08 block201.eigen.bin -rw-r--r-- 1 vw260 arc 80065456 Apr 7 19:08 block200.eigen.bin -rw-r--r-- 1 vw260 arc 167262748 Apr 7 19:08 block199.eigen.bin -rw-r--r-- 1 vw260 arc 54432016 Apr 7 19:08 block212.eigen.bin -rw-r--r-- 1 vw260 arc 111057488 Apr 7 19:08 block211.eigen.bin -rw-r--r-- 1 vw260 arc 46602496 Apr 7 19:08 block210.eigen.bin -rw-r--r-- 1 vw260 arc 46560176 Apr 7 19:08 block209.eigen.bin -rw-r--r-- 1 vw260 arc 41116980 Apr 7 19:08 block208.eigen.bin -rw-r--r-- 1 vw260 arc 19350628 Apr 7 19:08 block207.eigen.bin -rw-r--r-- 1 vw260 arc 53193968 Apr 7 19:08 block206.eigen.bin -rw-r--r-- 1 vw260 arc 49453816 Apr 7 19:08 block205.eigen.bin -rw-r--r-- 1 vw260 arc 70768612 Apr 7 19:08 block204.eigen.bin -rw-r--r-- 1 vw260 arc 65182848 Apr 7 19:08 block219.eigen.bin -rw-r--r-- 1 vw260 arc 98495248 Apr 7 19:08 block217.eigen.bin -rw-r--r-- 1 vw260 arc 121683716 Apr 7 19:08 block216.eigen.bin -rw-r--r-- 1 vw260 arc 84060944 Apr 7 19:08 block215.eigen.bin -rw-r--r-- 1 vw260 arc 44162680 Apr 7 19:08 block214.eigen.bin -rw-r--r-- 1 vw260 arc 117286064 Apr 7 19:08 block213.eigen.bin -rw-r--r-- 1 vw260 arc 184667956 Apr 7 19:08 block220.eigen.bin -rw-r--r-- 1 vw260 arc 133791896 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zhilizheng commented 1 year ago

Hi @vwarrier ,

Many thanks for the information. I checked the files should be all fine. Strangely, I run without any problem on my side. I plan to simulate exactly the same enviroment of your machine.

Beside, I noticed , you run on the head node, do you have some restrictions to run on head node? I don't whether submit the job would solve the problem or not.

Could you send me the information of your machine for my simulation? (such as Linux version, R version). If you don't know, just run the below code, and share me the sendzz.txt

echo "=====R configure" &> sendzz.txt
Rscript -e "sessionInfo()" &>> sendzz.txt

echo "=====ld version" &>> sendzz.txt
ldd --version &>>  sendzz.txt

echo "===== Linux" &>> sendzz.txt
cat /etc/*release* &>> sendzz.txt

echo "=====Kernel" &>> sendzz.txt
uname -rpo &>> sendzz.txt

echo "=====CPU info" &>> sendzz.txt
cat /proc/cpuinfo | head -n 50 &>> sendzz.txt

echo "=====lscpu" &>> sendzz.txt
lscpu &>> sendzz.txt

Thanks.

Regards, Zhili

zhilizheng commented 1 year ago

Hi @vwarrier

I find my previous code in the message would expose your machine's full host name, which may be not good for your security. Could you refer to the github issue page, copy and run the newest code? I removed the part that may expose your privacy.

Thanks for your help with the debug.

Regards, Zhili