Cannot open negative fits file

[diedie9]

Hello. When I run Wish, I get an error message.

steps: 6/6 “start” Tue Jun 14 10:18:26 CEST 2022 ERROR:Cannot open negative fits file /work/hudi/LINA-1/vir/wish/Co1-113K_/nullmodels/nullParameters.tsv. steps: 6/6 Tue Jun 14 10:18:28 CEST 2022

How to deal with it? Thanks very much

[ClovisG]

Hi, Thanks for your interest in our tool.

Please give more details: Do you use WIsH with Linux? as a Docker? Do you have access to the file "/work/hudi/LINA-1/vir/wish/Co1-113K_/nullmodels/nullParameters.tsv"? You can run the following command to check it:

head /work/hudi/LINA-1/vir/wish/Co1-113K_/nullmodels/nullParameters.tsv

If the file does not exist, you need either to generate this file look here, or run a prediction without p-values generation (i.e. without the -p parameter).

Let me know if you have any further issue. Clovis.

[diedie9]

Hi Clovis, Thanks for your reply.

I use the bash to run WIsH in Linux.

yes, I can access /work/hudi/LINA-1/vir/wish/Co1-113K_/nullmodels/nullParameters.tsv. And there are some message

NG-28519_LINA00523K_lib514357_78464-bin.68 -1.40601326823665 0.0108027997691293 Co1-174K-bin.65 -1.41437800689259 0.0118836231083342 Co1-598K-bin.60 -1.40846612291786 0.0267099254999412 Co1-413K_-bin.34 -1.40504311889719 0.0366269946237823 NG-28519_LINA00414K_lib514340_78643-bin.23 -1.41054054566341 0.0373640263907783 NG-28519_LINA00089K_lib527733_78464-bin.1 -1.41061645031591 0.0231964196444687 Co1-213K-bin.28 -1.40875699310741 0.0287130567940117 Co1-205K-bin.84 -1.40660014646755 0.0312217646568303 NG-28519_LINA00182K_lib514335_78863-bin.31 -1.41177971280873 0.0150262898152293 NG-28519_LINA00522K_lib514347_78863-bin.57 -1.39917443136129 0.0146365160056128

So I am so strange that message.

What else details you want to know?

Kind regards, Die

At 2022-06-14 11:15:21, "ClovisG" @.***> wrote:

Hi, Thanks for your interest in our tool.

Please give more details: Do you use WIsH with Linux? as a Docker? Do you have access to the file "/work/hudi/LINA-1/vir/wish/Co1-113K_/nullmodels/nullParameters.tsv"? You can run the following command to check it:

head /work/hudi/LINA-1/vir/wish/Co1-113K_/nullmodels/nullParameters.tsv

If the file does not exist, you need either to generate this file look here, or run a prediction without p-values generation (i.e. without the -p parameter).

Let me know if you have any further issue. Clovis.

— Reply to this email directly, view it on GitHub, or unsubscribe. You are receiving this because you authored the thread.Message ID: @.***>

[ClovisG]

Hi, There should be something wrong with the file access. I suggest that you put temporarily the null model parameters file into a simpler path (for instance /tmp/null.tsv) and see if it works (I suspect that the "-" and "_" of the path may interfere weirdly).

If this does not work, you may create an archive with one or two examples reproducing the bug of your phage+model+null models and send me by email so that I can see if I get the same error.

Best, Clovis.

[diedie9]

Hi, I run it with my simpler path, but it also has the same error message steps: 6/6 “start” Tue Jun 14 16:49:18 CEST 2022 ERROR:Cannot open negative fits file /work/hudi/nullmodels/nullParameters.tsv. steps: 6/6 Tue Jun 14 16:49:22 CEST 2022

There are 2 .fna files attached.

Please help me to check it.

Kind regards, Die

在 2022-06-14 15:15:15，"ClovisG" @.***> 写道：

Hi, There should be something wrong with the file access. I suggest that you put temporarily the null model parameters file into a simpler path (for instance /tmp/null.tsv) and see if it works (I suspect that the "-" and "_" of the path may interfere weirdly).

If this does not work, you may create an archive with one or two examples reproducing the bug of your phage+model+null models and send me by email so that I can see if I get the same error.

Best, Clovis.

— Reply to this email directly, view it on GitHub, or unsubscribe. You are receiving this because you authored the thread.Message ID: @.***>

从网易163邮箱发来的超大附件 viruses_test_by _wish.tar.xz (14.82M, 2022年6月29日 17:09 到期) 下载

[ClovisG]

Have you solved your issue? If not could you report me the exact command you use to run the prediction? Are you using the Docker version?

[ClovisG]

I'll set the flag to closed, don't hesitate to re-open it.