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qpWave - Segmentation fault (core dumped) #92

Open kimgeng5512 opened 2 years ago

kimgeng5512 commented 2 years ago

Hello, When I run qpWave in AdmixTools, I met a error: segmentation fault (core dumped) Here is the error message

qpWave version: 1520

recommended that inbreed be explicitly set inbreed set YES tmp: /tmp/fsx.7302 sh: 1: qpfstats: not found bad open /tmp/fsx.7302 (openit) can't open file /tmp/fsx.7302 of type r error info: No such file or directory Segmentation fault (core dumped)

What's wrong with it?

bumblenick commented 2 years ago

qpAdm calls qpfstats which must be in your path The key error line in your output is qpfstats not found

Nick

Sent from my iPhone

On Jun 21, 2022, at 9:19 AM, Jonghyun Kim @.***> wrote:

 Hello, When I run qpWave in AdmixTools, I met a error: segmentation fault (core dumped) Here is the error message

qpWave version: 1520

recommended that inbreed be explicitly set inbreed set YES tmp: /tmp/fsx.7302 sh: 1: qpfstats: not found bad open /tmp/fsx.7302 (openit) can't open file /tmp/fsx.7302 of type r error info: No such file or directory Segmentation fault (core dumped)

What's wrong with it?

— Reply to this email directly, view it on GitHub, or unsubscribe. You are receiving this because you are subscribed to this thread.

kimgeng5512 commented 2 years ago

Dear Nick

Hello, Thank you for your reply But, I actually have the qpfstats file, but why the program cannot find qpfstats? What should I do? Is there any problem in my files?

[image: image.png]

2022년 6월 21일 (화) 오후 10:36, bumblenick @.***>님이 작성:

qpAdm calls qpfstats which must be in your path The key error line in your output is qpfstats not found

Nick

Sent from my iPhone

On Jun 21, 2022, at 9:19 AM, Jonghyun Kim @.***> wrote:

 Hello, When I run qpWave in AdmixTools, I met a error: segmentation fault (core dumped) Here is the error message

qpWave version: 1520

recommended that inbreed be explicitly set inbreed set YES tmp: /tmp/fsx.7302 sh: 1: qpfstats: not found bad open /tmp/fsx.7302 (openit) can't open file /tmp/fsx.7302 of type r error info: No such file or directory Segmentation fault (core dumped)

What's wrong with it?

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bumblenick commented 2 years ago

Before you run qpWave please just run qpfstats (no parameters) You should see something like: no parameters

qpfstats version: 735

but I suspect you will get qpfstats: command not found

On Tue, Jun 21, 2022 at 6:54 PM Jonghyun Kim @.***> wrote:

Dear Nick

Hello, Thank you for your reply But, I actually have the qpfstats file, but why the program cannot find qpfstats? What should I do? Is there any problem in my files?

  • Jonghyun Kim -

[image: image.png]

2022년 6월 21일 (화) 오후 10:36, bumblenick @.***>님이 작성:

qpAdm calls qpfstats which must be in your path The key error line in your output is qpfstats not found

Nick

Sent from my iPhone

On Jun 21, 2022, at 9:19 AM, Jonghyun Kim @.***> wrote:

 Hello, When I run qpWave in AdmixTools, I met a error: segmentation fault (core dumped) Here is the error message

qpWave version: 1520

recommended that inbreed be explicitly set inbreed set YES tmp: /tmp/fsx.7302 sh: 1: qpfstats: not found bad open /tmp/fsx.7302 (openit) can't open file /tmp/fsx.7302 of type r error info: No such file or directory Segmentation fault (core dumped)

What's wrong with it?

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kimgeng5512 commented 2 years ago

Dear Nick

Thank you very much for your reply I can see the message like this Maybe I guess that I should designate the absolute path in the qpWave code, but how can I fix it? Maybe the qpWave program is written by binary language

[image: image.png]

2022년 6월 22일 (수) 오전 8:11, bumblenick @.***>님이 작성:

Before you run qpWave please just run qpfstats (no parameters) You should see something like: no parameters

qpfstats version: 735

but I suspect you will get qpfstats: command not found

On Tue, Jun 21, 2022 at 6:54 PM Jonghyun Kim @.***> wrote:

Dear Nick

Hello, Thank you for your reply But, I actually have the qpfstats file, but why the program cannot find qpfstats? What should I do? Is there any problem in my files?

  • Jonghyun Kim -

[image: image.png]

2022년 6월 21일 (화) 오후 10:36, bumblenick @.***>님이 작성:

qpAdm calls qpfstats which must be in your path The key error line in your output is qpfstats not found

Nick

Sent from my iPhone

On Jun 21, 2022, at 9:19 AM, Jonghyun Kim @.***> wrote:

 Hello, When I run qpWave in AdmixTools, I met a error: segmentation fault (core dumped) Here is the error message

qpWave version: 1520

recommended that inbreed be explicitly set inbreed set YES tmp: /tmp/fsx.7302 sh: 1: qpfstats: not found bad open /tmp/fsx.7302 (openit) can't open file /tmp/fsx.7302 of type r error info: No such file or directory Segmentation fault (core dumped)

What's wrong with it?

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bumblenick commented 2 years ago

If you wish to modify the code there is a line: sprintf(sss, "qpfstats -p %s > %s", ppp, fslog) ; You can change qpfstats to an absolute path and recompile

Good luck!

N

On Tue, Jun 21, 2022 at 7:35 PM Jonghyun Kim @.***> wrote:

Dear Nick

Thank you very much for your reply I can see the message like this Maybe I guess that I should designate the absolute path in the qpWave code, but how can I fix it? Maybe the qpWave program is written by binary language

  • Jonghyun Kim -

[image: image.png]

2022년 6월 22일 (수) 오전 8:11, bumblenick @.***>님이 작성:

Before you run qpWave please just run qpfstats (no parameters) You should see something like: no parameters

qpfstats version: 735

but I suspect you will get qpfstats: command not found

On Tue, Jun 21, 2022 at 6:54 PM Jonghyun Kim @.***> wrote:

Dear Nick

Hello, Thank you for your reply But, I actually have the qpfstats file, but why the program cannot find qpfstats? What should I do? Is there any problem in my files?

  • Jonghyun Kim -

[image: image.png]

2022년 6월 21일 (화) 오후 10:36, bumblenick @.***>님이 작성:

qpAdm calls qpfstats which must be in your path The key error line in your output is qpfstats not found

Nick

Sent from my iPhone

On Jun 21, 2022, at 9:19 AM, Jonghyun Kim @.***> wrote:

 Hello, When I run qpWave in AdmixTools, I met a error: segmentation fault (core dumped) Here is the error message

qpWave version: 1520

recommended that inbreed be explicitly set inbreed set YES tmp: /tmp/fsx.7302 sh: 1: qpfstats: not found bad open /tmp/fsx.7302 (openit) can't open file /tmp/fsx.7302 of type r error info: No such file or directory Segmentation fault (core dumped)

What's wrong with it?

— Reply to this email directly, view it on GitHub, or unsubscribe. You are receiving this because you are subscribed to this thread.

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kimgeng5512 commented 2 years ago

Dear Nick

I'm sorry for asking a lot of questions, but, I meant that "How can I fix the code although qpWave program is written by binary language" sorry for asking a lot

-Jonghyun Kim- [image: image.png]

2022년 6월 22일 (수) 오전 8:45, bumblenick @.***>님이 작성:

If you wish to modify the code there is a line: sprintf(sss, "qpfstats -p %s > %s", ppp, fslog) ; You can change qpfstats to an absolute path and recompile

Good luck!

N

On Tue, Jun 21, 2022 at 7:35 PM Jonghyun Kim @.***> wrote:

Dear Nick

Thank you very much for your reply I can see the message like this Maybe I guess that I should designate the absolute path in the qpWave code, but how can I fix it? Maybe the qpWave program is written by binary language

  • Jonghyun Kim -

[image: image.png]

2022년 6월 22일 (수) 오전 8:11, bumblenick @.***>님이 작성:

Before you run qpWave please just run qpfstats (no parameters) You should see something like: no parameters

qpfstats version: 735

but I suspect you will get qpfstats: command not found

On Tue, Jun 21, 2022 at 6:54 PM Jonghyun Kim @.***> wrote:

Dear Nick

Hello, Thank you for your reply But, I actually have the qpfstats file, but why the program cannot find qpfstats? What should I do? Is there any problem in my files?

  • Jonghyun Kim -

[image: image.png]

2022년 6월 21일 (화) 오후 10:36, bumblenick @.***>님이 작성:

qpAdm calls qpfstats which must be in your path The key error line in your output is qpfstats not found

Nick

Sent from my iPhone

On Jun 21, 2022, at 9:19 AM, Jonghyun Kim @.***> wrote:

 Hello, When I run qpWave in AdmixTools, I met a error: segmentation fault (core dumped) Here is the error message

qpWave version: 1520

recommended that inbreed be explicitly set inbreed set YES tmp: /tmp/fsx.7302 sh: 1: qpfstats: not found bad open /tmp/fsx.7302 (openit) can't open file /tmp/fsx.7302 of type r error info: No such file or directory Segmentation fault (core dumped)

What's wrong with it?

— Reply to this email directly, view it on GitHub, or unsubscribe. You are receiving this because you are subscribed to this thread.

— Reply to this email directly, view it on GitHub <

https://github.com/DReichLab/AdmixTools/issues/92#issuecomment-1161759252

, or unsubscribe <

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bumblenick commented 2 years ago

I think I have run out of help Please talk to a sysadmin at this point

N

Sent from my iPhone

On Jun 21, 2022, at 9:24 PM, Jonghyun Kim @.***> wrote:

 Dear Nick

I'm sorry for asking a lot of questions, but, I meant that "How can I fix the code although qpWave program is written by binary language" sorry for asking a lot

-Jonghyun Kim- [image: image.png]

2022년 6월 22일 (수) 오전 8:45, bumblenick @.***>님이 작성:

If you wish to modify the code there is a line: sprintf(sss, "qpfstats -p %s > %s", ppp, fslog) ; You can change qpfstats to an absolute path and recompile

Good luck!

N

On Tue, Jun 21, 2022 at 7:35 PM Jonghyun Kim @.***> wrote:

Dear Nick

Thank you very much for your reply I can see the message like this Maybe I guess that I should designate the absolute path in the qpWave code, but how can I fix it? Maybe the qpWave program is written by binary language

  • Jonghyun Kim -

[image: image.png]

2022년 6월 22일 (수) 오전 8:11, bumblenick @.***>님이 작성:

Before you run qpWave please just run qpfstats (no parameters) You should see something like: no parameters

qpfstats version: 735

but I suspect you will get qpfstats: command not found

On Tue, Jun 21, 2022 at 6:54 PM Jonghyun Kim @.***> wrote:

Dear Nick

Hello, Thank you for your reply But, I actually have the qpfstats file, but why the program cannot find qpfstats? What should I do? Is there any problem in my files?

  • Jonghyun Kim -

[image: image.png]

2022년 6월 21일 (화) 오후 10:36, bumblenick @.***>님이 작성:

qpAdm calls qpfstats which must be in your path The key error line in your output is qpfstats not found

Nick

Sent from my iPhone

On Jun 21, 2022, at 9:19 AM, Jonghyun Kim @.***> wrote:

 Hello, When I run qpWave in AdmixTools, I met a error: segmentation fault (core dumped) Here is the error message

qpWave version: 1520

recommended that inbreed be explicitly set inbreed set YES tmp: /tmp/fsx.7302 sh: 1: qpfstats: not found bad open /tmp/fsx.7302 (openit) can't open file /tmp/fsx.7302 of type r error info: No such file or directory Segmentation fault (core dumped)

What's wrong with it?

— Reply to this email directly, view it on GitHub, or unsubscribe. You are receiving this because you are subscribed to this thread.

— Reply to this email directly, view it on GitHub <

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kimgeng5512 commented 2 years ago

Dear Nick

I'm sorry, but can I ask one more question? I set the alias qpfstats="~~~/bin/qpfstats" and I could get the message even though I did not write the full absolute path [image: image.png]

But, my qpWave and qpAdm program don't still work because they cannot find qpfstats [image: image.png]

What should I do? I cannot find what is wrong with it. I'm sorry for asking a lot of questions, but could you help me?

-Jonghyun Kim-

2022년 6월 22일 (수) 오전 11:47, bumblenick @.***>님이 작성:

I think I have run out of help Please talk to a sysadmin at this point

N

Sent from my iPhone

On Jun 21, 2022, at 9:24 PM, Jonghyun Kim @.***> wrote:

 Dear Nick

I'm sorry for asking a lot of questions, but, I meant that "How can I fix the code although qpWave program is written by binary language" sorry for asking a lot

-Jonghyun Kim- [image: image.png]

2022년 6월 22일 (수) 오전 8:45, bumblenick @.***>님이 작성:

If you wish to modify the code there is a line: sprintf(sss, "qpfstats -p %s > %s", ppp, fslog) ; You can change qpfstats to an absolute path and recompile

Good luck!

N

On Tue, Jun 21, 2022 at 7:35 PM Jonghyun Kim @.***> wrote:

Dear Nick

Thank you very much for your reply I can see the message like this Maybe I guess that I should designate the absolute path in the qpWave code, but how can I fix it? Maybe the qpWave program is written by binary language

  • Jonghyun Kim -

[image: image.png]

2022년 6월 22일 (수) 오전 8:11, bumblenick @.***>님이 작성:

Before you run qpWave please just run qpfstats (no parameters) You should see something like: no parameters

qpfstats version: 735

but I suspect you will get qpfstats: command not found

On Tue, Jun 21, 2022 at 6:54 PM Jonghyun Kim @.***> wrote:

Dear Nick

Hello, Thank you for your reply But, I actually have the qpfstats file, but why the program cannot find qpfstats? What should I do? Is there any problem in my files?

  • Jonghyun Kim -

[image: image.png]

2022년 6월 21일 (화) 오후 10:36, bumblenick @.***>님이 작성:

qpAdm calls qpfstats which must be in your path The key error line in your output is qpfstats not found

Nick

Sent from my iPhone

On Jun 21, 2022, at 9:19 AM, Jonghyun Kim @.***> wrote:

 Hello, When I run qpWave in AdmixTools, I met a error: segmentation fault (core dumped) Here is the error message

qpWave version: 1520

recommended that inbreed be explicitly set inbreed set YES tmp: /tmp/fsx.7302 sh: 1: qpfstats: not found bad open /tmp/fsx.7302 (openit) can't open file /tmp/fsx.7302 of type r error info: No such file or directory Segmentation fault (core dumped)

What's wrong with it?

— Reply to this email directly, view it on GitHub, or unsubscribe. You are receiving this because you are subscribed to this thread.

— Reply to this email directly, view it on GitHub <

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bumblenick commented 2 years ago

You need sysadmin help

N

Sent from my iPhone

On Jun 22, 2022, at 10:16 PM, Jonghyun Kim @.***> wrote:

 Dear Nick

I'm sorry, but can I ask one more question? I set the alias qpfstats="~~~/bin/qpfstats" and I could get the message even though I did not write the full absolute path [image: image.png]

But, my qpWave and qpAdm program don't still work because they cannot find qpfstats [image: image.png]

What should I do? I cannot find what is wrong with it. I'm sorry for asking a lot of questions, but could you help me?

-Jonghyun Kim-

2022년 6월 22일 (수) 오전 11:47, bumblenick @.***>님이 작성:

I think I have run out of help Please talk to a sysadmin at this point

N

Sent from my iPhone

On Jun 21, 2022, at 9:24 PM, Jonghyun Kim @.***> wrote:

 Dear Nick

I'm sorry for asking a lot of questions, but, I meant that "How can I fix the code although qpWave program is written by binary language" sorry for asking a lot

-Jonghyun Kim- [image: image.png]

2022년 6월 22일 (수) 오전 8:45, bumblenick @.***>님이 작성:

If you wish to modify the code there is a line: sprintf(sss, "qpfstats -p %s > %s", ppp, fslog) ; You can change qpfstats to an absolute path and recompile

Good luck!

N

On Tue, Jun 21, 2022 at 7:35 PM Jonghyun Kim @.***> wrote:

Dear Nick

Thank you very much for your reply I can see the message like this Maybe I guess that I should designate the absolute path in the qpWave code, but how can I fix it? Maybe the qpWave program is written by binary language

  • Jonghyun Kim -

[image: image.png]

2022년 6월 22일 (수) 오전 8:11, bumblenick @.***>님이 작성:

Before you run qpWave please just run qpfstats (no parameters) You should see something like: no parameters

qpfstats version: 735

but I suspect you will get qpfstats: command not found

On Tue, Jun 21, 2022 at 6:54 PM Jonghyun Kim @.***> wrote:

Dear Nick

Hello, Thank you for your reply But, I actually have the qpfstats file, but why the program cannot find qpfstats? What should I do? Is there any problem in my files?

  • Jonghyun Kim -

[image: image.png]

2022년 6월 21일 (화) 오후 10:36, bumblenick @.***>님이 작성:

qpAdm calls qpfstats which must be in your path The key error line in your output is qpfstats not found

Nick

Sent from my iPhone

On Jun 21, 2022, at 9:19 AM, Jonghyun Kim @.***> wrote:

 Hello, When I run qpWave in AdmixTools, I met a error: segmentation fault (core dumped) Here is the error message

qpWave version: 1520

recommended that inbreed be explicitly set inbreed set YES tmp: /tmp/fsx.7302 sh: 1: qpfstats: not found bad open /tmp/fsx.7302 (openit) can't open file /tmp/fsx.7302 of type r error info: No such file or directory Segmentation fault (core dumped)

What's wrong with it?

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