kent

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`Response is missing required header Content-Length: for url `

11

**Describe the bug** Unable to import bigwig files stored on a remote server. Originally posted [in the `rtracklayer` GH repo](https://github.com/lawremi/rtracklayer/issues/73) and was directed by `rtracklayer` developer @sanchit-saini to repost here....

bschilder

module in src/hg can't make with MySQL 8^

1

make in kent/src/hg directory, shows up errors: ```bash jksql.c: In function ‘sqlConnRemoteFillIn’: jksql.c:1121:5: error: unknown type name ‘my_bool’; did you mean ‘_Bool’? 1121 | my_bool flag = TRUE; | ^~~~~~~...

shiqi-yang

Thank you for making all these bioinfo scripts, they are very useful! I'm constructing some karyotype chromosomes now using some de-novo genome assembly, and I'm trying to adopt the doBlastzChainNet.pl...

Ziwei-Liu

build pslSplitOnTarget ？

5

I want to follow [Whole_genome_alignment_howto](http://genomewiki.ucsc.edu/index.php/Whole_genome_alignment_howto) pipeline to construct two genome alignment，but the [Parasol Job Control System ](http://genomewiki.ucsc.edu/index.php/DoBlastzChainNet.pl) can not install on my machine，So I want to execute the process manually。However,...

hexin010101

**Describe the bug** A clear and concise description of what the bug is. ``` NC_000005.10:110000000-120000000 is not in /path/to/GRCh38_noY.2bit ``` **To Reproduce** I followed the instruction on the website http://genomewiki.ucsc.edu/index.php/Same_species_lift_over_construction...

yeeus

Question about classNet

9

Hello, This bug appeared when I was running netClass，“can't find mysql connection info for database GCF_000001405.40_GRCh38.p14_genomic.fna in hg.conf or ~/.hg.conf, should have a default profile named "db", so values for...

Marh32

src/lib/htmshell.c doesn't compile on aarch64 Ubuntu 20.04

2

**Describe the bug** src/lib/htmshell.c doesn't compile on an Ubuntu 20.04 aarch64 with the default gcc 9.4.0 installed by `apt install gcc`. The source file compiles successfully on Ubuntu 20.04 x86_64....

nathanweeks

[New research](https://www.biorxiv.org/content/10.1101/2023.05.01.538516v1.full.pdf) shows position S:417/440/505 reversion may offer great immune escape under current immune background of repeated omicron infections. Those reversions may produce real growth advantages and we may be...

xz-keg

Incorrect number of bytes for empty slots in rWriteLeaves

5

In `kent/src/lib/cirTree.c`, in the function `rWriteLeaves`, in this section: ```C /* Write out elements of this node. */ struct rTree *el; for (el = tree->children; el != NULL; el =...

mdehoon

Where can I download the pslSplitOnTarget binary?

2

hi， Where can I download the pslSplitOnTarget binary?

danrans123