issue with join maf by species

usegalaxy.org support
#1

Hi,
I’ve been using the join maf by species tool for a long time, it always works very well. However, it started to report error since today. The massage I got is:“The server could not complete the request. Please contact the Galaxy Team if this error persists. Error executing tool with id ‘MAF_Thread_For_Species1’: getattr(): attribute name must be string”. This error never happened before (I was using the same maf file for joining). Do you have any suggestions?

Thanks a lot!

#2

Hi Yuncheng, I’m having trouble reproducing this error. Would you feel like sharing your history?

#3

Hi,

Sure, I uploaded the hg19_panTro4_example.maf (attached) file to the Galaxy and run “join MAF by species” and selected all species and then click execute (picture attached). The error came immediately after I submitted the job, here is the full error report:
The server could not complete the request. Please contact the Galaxy Team if this error persists. Error executing tool with id ‘MAF_Thread_For_Species1’: getattr(): attribute name must be string

{
    "history_id": "78f3c190b062b4ac",
    "tool_id": "MAF_Thread_For_Species1",
    "tool_version": "1.0.0",
    "inputs": {
        "input1": {
            "values": [
                {
                    "id": "bbd44e69cb8906b5ab0ce514a325c2cd",
                    "hid": 40,
                    "name": "hg19_panTro4_example.maf",
                    "tags": [],
                    "src": "hda",
                    "keep": false
                }
            ],
            "batch": false
        },
        "species": [
            "hg19",
            "panTro4"
        ]
    }
}

image.png
image.png1304×395 25.7 KB

Nick via Galaxy Community Help <galaxy@discoursemail.com> 于2020年7月31日周五 上午11:42写道：

(Attachment hg19_panTro4_example.maf is missing)

1 Like
#4

Hi,
Sorry about the missing attachment. Here is the content of that maf file:

##maf version=1 scoring=roast.v3.3
a score=0.000000
s hg19.chr1 793442 9 + 249250621 GAAAACGGA
s panTro4.chr1 758048 9 + 228333871 GAAAACGGA
i panTro4.chr1 C 0 C 0

a score=204951.000000
s hg19.chr1 793451 39 + 249250621 GCTTCTTGGAGGCCACCTGCTGGTGGCAGTGATCTGACC
s panTro4.chr1 758057 39 + 228333871 GCTTCTTGGAGGCCACCTACTGGTGGCAGTGATCTGACC
i panTro4.chr1 C 0 C 0

a score=0.000000
s hg19.chr1 793490 16 + 249250621 GCTGTTTAAGCTTTCT
s panTro4.chr1 758096 16 + 228333871 GCTGTTTAAGCTTTCT
i panTro4.chr1 C 0 C 0

a score=0.000000
s hg19.chr1 817727 50 + 249250621 GATTCAACTCATAGACTCAGGTGGGTGAGGATCTATTGTTCAGCTACATT
s panTro4.chr1 785603 50 + 228333871 GATTCAATTCATAGACTCAGCTGGGTGAGGATCTATTGTTCAGCTACATT
i panTro4.chr1 C 0 C 0