Bwt2glob.bam: no such file or directory

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August undefined, 2024

WebJun 29, 2013 · Here select the Global Compiler settings (with a Gear Symbol) and in the sub-options select the Toolchain executables option. Under this select the Compiler's installation directory. Here browse files to select: C:\Program Files (x86)\Codeblocks\MinGW\bin. Now select the Auto-detect option on the right. WebDec 28, 2024 · After pulling parabrick docker image from here, the following command works fine and return the options : docker run -it nvcr.io/hpc/parabricks:v2.5.0 -h But …

bowtie_global error · Issue #441 · nservant/HiC-Pro · GitHub

WebBash would report 'No such file or directory' of files that clearly existed with the execute attribute. sudo apt-get install --reinstall libc6-i386. Fixed the problem. These are the "GNU C Library: 32-bit shared libraries for AMD64". Seems like this is a bug in bash.WebJan 11, 2024 · First you need to edit SAMStepper.h and SAMStepper.cc files in /src/include/gtools directory by adding the directory after -I flag and a bam.h file after #include line. For instance (SAMStepper.h file editing);early childhood education jobs phoenix az

c - GDB no such file or directory - Stack Overflow

WebJan 31, 2024 · samtools index: failed to create index for "./output.bam": No such file or directory. The strange fact is that samtools appears to have been given output.bam as … WebApr 6, 2011 · 4. Save as in excel will keep the file open and lock it so you can't open it. Close the excel file or you won't be able to use it in R. Give the full path and escape backslashes read.csv ("c:\\users\\JoeUser\\Desktop\\JoesData.csv") Share. Improve this answer. Follow.WebJul 29, 2015 · Aug 6, 2015 at 9:18. Add a comment. 3. By default, shutil.copytree () follows (resolves) symbolic links. If the symlink is broken, it raises a No such file or directory exception. One workaround is to specify that symlinks should be copied unresolved by passing symlinks=True. Share. Improve this answer. Follow. css 梯形边框

FileNotFoundError: [Errno 2] No such file or directory Pandas

open() gives FileNotFoundError / IOError:

WebMar 2, 2024 · About GENOME_SIZE, the file is loaded from the ANNOTATION folder in the HiC-Pro installation directory, you just need to put the file name. Le mer. 4 mars …WebMake can't find curses.h. I have this program called samtools (version 1.3) that is used for manipulating the files that you get from DNA sequencing experiments. The downloaded program is contained in a folder. To set the program up I enter that folder in the terminal (on an ubuntu computer). I enter the commando "make". css 梯形图片WebThe name of the binary file is misprinted or the shared space cannot be reached. Solution Check the name of the binary file and check if the shared path is available across all the nodes.early childhood education lockwood smith

"WebApr 26, 2024 · Hi Mikhail, Thank you very much for your answer. I have been running the script by chunks of code and I have found two issues. I am going to post it here just in … " - Bwt2glob.bam: no such file or directory

Bwt2glob.bam: no such file or directory

bam/sam.h · Issue #54 · shendurelab/LACHESIS · GitHub

WebDec 3, 2024 · What we will be looking for is the file SampleA1_R1_fastq_gz-hla-extracted-1_fq.bam in the results folder created hisatgenotype_A1. The goal of this set of tests is to see if the read extraction contains a bug with your files. at the top of my code. I entered this on the command line: # find / -name stdlib.h find: `/home/

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WebI am using various stdlib functions like srand(), etc. I have the line #include <stdlib.h>WebFeb 18, 2024 · Providing the absolute path to the .xlsx file worked for me. For situations where you cannot anticipate what the absolute path will be, try the following: import …

Web5. /brian2 doesn't exist. /home/brian2 does exist. If you are already inside /home then you simply need to run cd brian2 to get into that directory. If you are already that user, then … WebFeb 18, 2024 · 0. Providing the absolute path to the .xlsx file worked for me. For situations where you cannot anticipate what the absolute path will be, try the following: import os.path pd.read_excel (io=os.path.abspath ('path\\to\\excel_file.xlsx')) 'path\to\excel_file.xlsx' should be the relative path to the .xlsx from the project root.

WebDec 27, 2024 · 2024年 12月 27日星期日 01:27:25 CST Bowtie2 alignment step2 ... Logs: logs/9WT/mapping_step2.logWebDec 12, 2024 · When I perform HiC-pro ,it stopped at the alignment step,like follow described: ~/software/HiC-Pro_2.11.1/scripts/hic.inc.sh: line 86: …

WebOct 15, 2024 · Hi @imdanique, Thanks for the update. Can try to get to a point where when you run the docker command, your ls can see the file? Because if the ls command can't list the file, that means deepvariant binary would have no chance to find the file.

WebMar 9, 2014 · 6 Answers. When you open a file with the name address.csv, you are telling the open () function that your file is in the current working directory. This is called a relative path. import os cwd = os.getcwd () # Get the current working directory (cwd) files = os.listdir (cwd) # Get all the files in that directory print ("Files in %r: %s" % (cwd ...early childhood education knowledge centerWebSep 27, 2024 · samtools index: failed to create index for "mh30_2_clean_R1_nextgraph_pilon_5_1.filter.no.plastid.fa.bwt2merged.bam": No such … early childhood education lawsWebOct 15, 2010 · Therefore I used the following approach, (mentioned in Bash script – "/bin/bash^M: bad interpreter: No such file or directory" ), where you can use the sed …early childhood education learning frameworksWebMar 14, 2024 · /usr/local/bin//HiC-Pro_3.0.0/scripts/hic.inc.sh: line 86: bowtie_results/bwt2_global/dixon_2M_2/SRR400264_01_R2_/home/HICPRO/input/test_dataset/reference/hg19.fa.bwt2glob.bam: … css 梯形背景色WebApr 8, 2024 · Check if there's a typo in the code or in the filename of the file Make sure the file is really under the current working directory. Sometimes similar filenames or info … early childhood education lehman collegeWebMar 9, 2014 · You are using a relative path, which means that the program looks for the file in the working directory. The error is telling you that there is no file of that name in the …early childhood education learning togetherWebSep 27, 2024 · Hi, When applying HiC-pro pipeline (version 2.7.8) on a pair of fastq reads, I am getting the following error: make: *** [hic_qc] Error 1 Inspecting within the … early childhood education lps